{ "description": "LSV monitor-next benchmark with prompts rewritten to match finetuning monitoring delta prompts.", "examples": [ { "clip_id": "DJI_48", "eval_id": "monnext_clean_0001", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":16},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":33,\"tds\":17}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":16},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":33,\"tds\":17}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains target cells", "micropipette Used for adding reagents and virus", "TC hood Laminar flow hood for sterile work", "incubator Standard culture conditions (37°C, 5% CO2)" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 16 }, { "notes": [ "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection)." ], "step": "4", "tas": 33, "tds": 17 } ], "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium", "lentivirus suspension Added at desired MOI" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 37.65, "video_path": "videos640/DJI_48.mp4", "video_start": 34.35, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_48", "eval_id": "monnext_skip_0001", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains target cells", "micropipette Used for adding reagents and virus", "TC hood Laminar flow hood for sterile work", "incubator Standard culture conditions (37°C, 5% CO2)" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 16 } ], "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium", "lentivirus suspension Added at desired MOI" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 37.65, "video_path": "videos640/DJI_48.mp4", "video_start": 34.35, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_21", "eval_id": "monnext_clean_0002", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 22, "tds": 1 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 25, "tds": 3 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 33.75, "video_path": "videos640/DJI_21.mp4", "video_start": 28.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_21", "eval_id": "monnext_skip_0002", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 22, "tds": 1 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Incubate the DNA-cell mixture on ice for 5 seconds.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 33.75, "video_path": "videos640/DJI_21.mp4", "video_start": 28.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0003", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 } ], "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 }, { "note": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "8" ], "task_type": "monitor_next_step_delta", "video_end": 68.0, "video_path": "videos640/DJI_07.mp4", "video_start": 60.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0003", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 } ], "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 5: Place dish in biosafety cabinet", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 }, { "note": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "8" ], "task_type": "monitor_next_step_delta", "video_end": 68.0, "video_path": "videos640/DJI_07.mp4", "video_start": 60.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_28", "eval_id": "monnext_clean_0004", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":69,\"tds\":7}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":69,\"tds\":7}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 62, "tds": 16 }, { "notes": [ "Place the tube into the thermocycler." ], "step": "8", "tas": 69, "tds": 7 } ], "on": "9", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 72.1, "video_path": "videos640/DJI_28.mp4", "video_start": 69.9, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_28", "eval_id": "monnext_skip_0004", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 62, "tds": 16 } ], "on": "9", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 8: Place the tube into the thermocycler.", "error_type": "step_skipped", "step_ref": "8", "t": 0.0 } ], "new_notes": [ { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 8 was completed before continuing." }, "target_error_step_id": "8", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 72.1, "video_path": "videos640/DJI_28.mp4", "video_start": 69.9, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_01_04_LF", "eval_id": "monnext_clean_0005", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Sterilize reagents before placing in hood using ethanol\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Sterilize reagents before placing in hood using ethanol\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Sterilize reagents before placing in hood using ethanol" ], "step": "1", "tas": 13, "tds": 13 } ], "on": "2", "protocol": [ { "desc": "Sterilize reagents before placing in hood using ethanol", "order": 1, "step": "1" }, { "desc": "Place sterile 15mL EP tube in hood", "order": 2, "step": "2" }, { "desc": "Place sterile flask/plate in hood", "order": 3, "step": "3" }, { "desc": "Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Place sterile 15mL EP tube in hood", "t": 0.0 }, { "note": "Place sterile flask/plate in hood", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 36.0, "video_path": "videos640/MV_01_04_LF.mp4", "video_start": 28.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_04_LF", "eval_id": "monnext_skip_0005", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Sterilize reagents before placing in hood using ethanol", "order": 1, "step": "1" }, { "desc": "Place sterile 15mL EP tube in hood", "order": 2, "step": "2" }, { "desc": "Place sterile flask/plate in hood", "order": 3, "step": "3" }, { "desc": "Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Sterilize reagents before placing in hood using ethanol", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Place sterile 15mL EP tube in hood", "t": 0.0 }, { "note": "Place sterile flask/plate in hood", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 36.0, "video_path": "videos640/MV_01_04_LF.mp4", "video_start": 28.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_clean_0006", "history_variant": "clean", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17},{\"notes\":[\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\"],\"step\":\"6\",\"tas\":80,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17},{\"notes\":[\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\"],\"step\":\"6\",\"tas\":80,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 }, { "notes": [ "Mix well." ], "step": "4", "tas": 70, "tds": 17 }, { "notes": [ "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency)." ], "step": "6", "tas": 80, "tds": 10 } ], "on": "7", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 91.625, "video_path": "videos640/DJI_10.mp4", "video_start": 83.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_10", "eval_id": "monnext_skip_0006", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 }, { "notes": [ "Mix well." ], "step": "4", "tas": 70, "tds": 17 } ], "on": "7", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 6: Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 91.625, "video_path": "videos640/DJI_10.mp4", "video_start": 83.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_01_09_CH", "eval_id": "monnext_clean_0007", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve flask of cells to be passaged\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve flask of cells to be passaged\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve flask of cells to be passaged" ], "step": "1", "tas": 4, "tds": 4 } ], "on": "2", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Check cell density of flask", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 28.025, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 10.975, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_09_CH", "eval_id": "monnext_skip_0007", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Retrieve flask of cells to be passaged", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Check cell density of flask", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 28.025, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 10.975, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_20", "eval_id": "monnext_clean_0008", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 40.0, "video_path": "videos640/XM_20.mp4", "video_start": 32.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_20", "eval_id": "monnext_skip_0008", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 40.0, "video_path": "videos640/XM_20.mp4", "video_start": 32.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_07", "eval_id": "monnext_clean_0009", "history_variant": "clean", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":25,\"tds\":14},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":43,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":25,\"tds\":14},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":43,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes labeled 1-4.", "pipette Used for liquid handling and mixing.", "pipette tips", "marker Used for labeling tubes.", "tube rack Holds the PCR tubes." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 25, "tds": 14 }, { "notes": [ "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting." ], "step": "3", "tas": 43, "tds": 12 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.", "reagents": [ "sterile water (100 µL per tube) Used as diluent in all tubes.", "original sample (100 µL) Starting material for the dilution series." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 50.35, "video_path": "videos640/XM_07.mp4", "video_start": 47.2, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_07", "eval_id": "monnext_skip_0009", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":25,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":25,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes labeled 1-4.", "pipette Used for liquid handling and mixing.", "pipette tips", "marker Used for labeling tubes.", "tube rack Holds the PCR tubes." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 25, "tds": 14 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.", "reagents": [ "sterile water (100 µL per tube) Used as diluent in all tubes.", "original sample (100 µL) Starting material for the dilution series." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 50.35, "video_path": "videos640/XM_07.mp4", "video_start": 47.2, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_28", "eval_id": "monnext_clean_0010", "history_variant": "clean", "operation": "Freeze_Cells_Right_1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"notes\":[\"Aspirate culture medium from the petri dish.\"],\"step\":\"1.1\",\"tas\":22,\"tds\":22}],\"on\":\"1.2\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Harvesting by Trypsinization", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"notes\":[\"Aspirate culture medium from the petri dish.\"],\"step\":\"1.1\",\"tas\":22,\"tds\":22}],\"on\":\"1.2\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Petri dish Contains the cell culture", "Serological pipette Used for aspirating medium", "Micropipette Eppendorf brand used for adding reagents", "Centrifuge tube Used for collecting harvested cells", "Tube rack Blue rack holding reagent tubes" ], "history": [ { "notes": [ "Aspirate culture medium from the petri dish." ], "step": "1.1", "tas": 22, "tds": 22 } ], "on": "1.2", "protocol": [ { "desc": "Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.", "order": 1, "step": "1" }, { "desc": "Aspirate culture medium from the petri dish.", "order": 2, "step": "1.1" }, { "desc": "Add PBS wash buffer to the dish.", "order": 3, "step": "1.2" }, { "desc": "Swirl the dish to wash the cell monolayer.", "order": 4, "step": "1.3" }, { "desc": "Add trypsin solution to the dish to detach cells.", "order": 5, "step": "1.4" }, { "desc": "Collect the cell suspension into a centrifuge tube.", "order": 6, "step": "1.5" } ], "protocol_summary": "The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.", "reagents": [ "Culture medium Pink liquid in the petri dish", "PBS Visible in a tube labeled 'PBS 2X'", "Trypsin Visible in a tube labeled 'Tryp'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1.3", "target_delta": { "current_step": "1.3", "errors": [], "new_notes": [ { "note": "Add PBS wash buffer to the dish.", "t": 0.0 }, { "note": "Swirl the dish to wash the cell monolayer.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1.2", "target_visible_step_ids": [ "1.2", "1.3" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/XM_28.mp4", "video_start": 36.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_28", "eval_id": "monnext_skip_0010", "history_variant": "skipped_last_step", "operation": "Freeze_Cells_Right_1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[],\"on\":\"1.2\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Harvesting by Trypsinization", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[],\"on\":\"1.2\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Petri dish Contains the cell culture", "Serological pipette Used for aspirating medium", "Micropipette Eppendorf brand used for adding reagents", "Centrifuge tube Used for collecting harvested cells", "Tube rack Blue rack holding reagent tubes" ], "history": [], "on": "1.2", "protocol": [ { "desc": "Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.", "order": 1, "step": "1" }, { "desc": "Aspirate culture medium from the petri dish.", "order": 2, "step": "1.1" }, { "desc": "Add PBS wash buffer to the dish.", "order": 3, "step": "1.2" }, { "desc": "Swirl the dish to wash the cell monolayer.", "order": 4, "step": "1.3" }, { "desc": "Add trypsin solution to the dish to detach cells.", "order": 5, "step": "1.4" }, { "desc": "Collect the cell suspension into a centrifuge tube.", "order": 6, "step": "1.5" } ], "protocol_summary": "The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.", "reagents": [ "Culture medium Pink liquid in the petri dish", "PBS Visible in a tube labeled 'PBS 2X'", "Trypsin Visible in a tube labeled 'Tryp'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1.3", "target_delta": { "current_step": "1.3", "errors": [ { "description": "The state is missing previously completed step 1.1: Aspirate culture medium from the petri dish.", "error_type": "step_skipped", "step_ref": "1.1", "t": 0.0 } ], "new_notes": [ { "note": "Add PBS wash buffer to the dish.", "t": 0.0 }, { "note": "Swirl the dish to wash the cell monolayer.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1.1 was completed before continuing." }, "target_error_step_id": "1.1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1.2", "target_visible_step_ids": [ "1.2", "1.3" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/XM_28.mp4", "video_start": 36.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_37", "eval_id": "monnext_clean_0011", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 40, "tds": 35 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 98, "tds": 57 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 126.4, "video_path": "videos640/DJI_37.mp4", "video_start": 117.6, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_37", "eval_id": "monnext_skip_0011", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 40, "tds": 35 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 126.4, "video_path": "videos640/DJI_37.mp4", "video_start": 117.6, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_23", "eval_id": "monnext_clean_0012", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 42.0, "video_path": "videos640/XM_23.mp4", "video_start": 34.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_skip_0012", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 42.0, "video_path": "videos640/XM_23.mp4", "video_start": 34.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_26", "eval_id": "monnext_clean_0013", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 30.625, "video_path": "videos640/DJI_26.mp4", "video_start": 22.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_26", "eval_id": "monnext_skip_0013", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 30.625, "video_path": "videos640/DJI_26.mp4", "video_start": 22.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_47", "eval_id": "monnext_clean_0014", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\",\"ice bucket Used to keep lentivirus cold during thawing.\"],\"history\":[{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":10,\"tds\":10}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium to enhance infection.\",\"culture medium\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\",\"ice bucket Used to keep lentivirus cold during thawing.\"],\"history\":[{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":10,\"tds\":10}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium to enhance infection.\",\"culture medium\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂).", "ice bucket Used to keep lentivirus cold during thawing." ], "history": [ { "notes": [ "Thaw the required aliquot of lentivirus on ice." ], "step": "2", "tas": 10, "tds": 10 } ], "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium to enhance infection.", "culture medium" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 17.75, "video_path": "videos640/DJI_47.mp4", "video_start": 12.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_47", "eval_id": "monnext_skip_0014", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\",\"ice bucket Used to keep lentivirus cold during thawing.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium to enhance infection.\",\"culture medium\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\",\"ice bucket Used to keep lentivirus cold during thawing.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium to enhance infection.\",\"culture medium\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂).", "ice bucket Used to keep lentivirus cold during thawing." ], "history": [], "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium to enhance infection.", "culture medium" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Thaw the required aliquot of lentivirus on ice.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 17.75, "video_path": "videos640/DJI_47.mp4", "video_start": 12.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_clean_0015", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14},{\"notes\":[\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\"],\"step\":\"6\",\"tas\":89,\"tds\":9}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14},{\"notes\":[\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\"],\"step\":\"6\",\"tas\":89,\"tds\":9}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 79, "tds": 14 }, { "notes": [ "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency)." ], "step": "6", "tas": 89, "tds": 9 } ], "on": "7", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 97.75, "video_path": "videos640/DJI_09.mp4", "video_start": 92.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_skip_0015", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 79, "tds": 14 } ], "on": "7", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 6: Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 97.75, "video_path": "videos640/DJI_09.mp4", "video_start": 92.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0016", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 } ], "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Place dish in biosafety cabinet", "t": 0.0 }, { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 56.0, "video_path": "videos640/DJI_07.mp4", "video_start": 50.65, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0016", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 } ], "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Remove 10cm dish from incubator", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Place dish in biosafety cabinet", "t": 0.0 }, { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 56.0, "video_path": "videos640/DJI_07.mp4", "video_start": 50.65, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_01_TD", "eval_id": "monnext_clean_0017", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\"],\"step\":\"1\",\"tas\":53,\"tds\":53},{\"notes\":[\"Thaw DNA\"],\"step\":\"2\",\"tas\":104,\"tds\":9},{\"notes\":[\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\"],\"step\":\"3\",\"tas\":127,\"tds\":0}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\"],\"step\":\"1\",\"tas\":53,\"tds\":53},{\"notes\":[\"Thaw DNA\"],\"step\":\"2\",\"tas\":104,\"tds\":9},{\"notes\":[\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\"],\"step\":\"3\",\"tas\":127,\"tds\":0}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube" ], "step": "1", "tas": 53, "tds": 53 }, { "notes": [ "Thaw DNA" ], "step": "2", "tas": 104, "tds": 9 }, { "notes": [ "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block" ], "step": "3", "tas": 127, "tds": 0 } ], "on": "4", "protocol": [ { "desc": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Thaw DNA", "order": 2, "step": "2" }, { "desc": "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "order": 3, "step": "3" }, { "desc": "Add DNA substrate (Plasmid or PCR product) to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add DNA substrate (Plasmid or PCR product) to the tube", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 252.0, "video_path": "videos640/MV_03_01_TD.mp4", "video_start": 234.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_01_TD", "eval_id": "monnext_skip_0017", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\"],\"step\":\"1\",\"tas\":53,\"tds\":53},{\"notes\":[\"Thaw DNA\"],\"step\":\"2\",\"tas\":104,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\"],\"step\":\"1\",\"tas\":53,\"tds\":53},{\"notes\":[\"Thaw DNA\"],\"step\":\"2\",\"tas\":104,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube" ], "step": "1", "tas": 53, "tds": 53 }, { "notes": [ "Thaw DNA" ], "step": "2", "tas": 104, "tds": 9 } ], "on": "4", "protocol": [ { "desc": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Thaw DNA", "order": 2, "step": "2" }, { "desc": "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "order": 3, "step": "3" }, { "desc": "Add DNA substrate (Plasmid or PCR product) to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add DNA substrate (Plasmid or PCR product) to the tube", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 252.0, "video_path": "videos640/MV_03_01_TD.mp4", "video_start": 234.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_02", "eval_id": "monnext_clean_0018", "history_variant": "clean", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile eppendorf tube\"],\"history\":[{\"notes\":[\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":24,\"tds\":24},{\"notes\":[\"Add Cas9 plasmid.\"],\"step\":\"2\",\"tas\":45,\"tds\":21}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery via PEI Transfection", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile eppendorf tube\"],\"history\":[{\"notes\":[\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":24,\"tds\":24},{\"notes\":[\"Add Cas9 plasmid.\"],\"step\":\"2\",\"tas\":45,\"tds\":21}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile eppendorf tube" ], "history": [ { "notes": [ "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 24, "tds": 24 }, { "notes": [ "Add Cas9 plasmid." ], "step": "2", "tas": 45, "tds": 21 } ], "on": "3", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add guide RNA plasmid.", "t": 0.0 }, { "note": "Add PEI (4:1 ratio to DNA).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 67.0, "video_path": "videos640/DJI_02.mp4", "video_start": 59.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_02", "eval_id": "monnext_skip_0018", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile eppendorf tube\"],\"history\":[{\"notes\":[\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":24,\"tds\":24}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery via PEI Transfection", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile eppendorf tube\"],\"history\":[{\"notes\":[\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":24,\"tds\":24}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile eppendorf tube" ], "history": [ { "notes": [ "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 24, "tds": 24 } ], "on": "3", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add Cas9 plasmid.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add guide RNA plasmid.", "t": 0.0 }, { "note": "Add PEI (4:1 ratio to DNA).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 67.0, "video_path": "videos640/DJI_02.mp4", "video_start": 59.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_52_HD", "eval_id": "monnext_clean_0019", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place apprpriate spin column in collection tube\"],\"step\":\"1\",\"tas\":7,\"tds\":7}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place apprpriate spin column in collection tube\"],\"step\":\"1\",\"tas\":7,\"tds\":7}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place apprpriate spin column in collection tube" ], "step": "1", "tas": 7, "tds": 7 } ], "on": "2", "protocol": [ { "desc": "Place apprpriate spin column in collection tube", "order": 1, "step": "1" }, { "desc": "Apply 0.050 mL Buffer EB (Elution)", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 4, "step": "4" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Apply 0.050 mL Buffer EB (Elution)", "t": 0.0 }, { "note": "Load sample into microcentrifuge", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 99.0, "video_path": "videos640/MV_02_52_HD.mp4", "video_start": 94.5, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_52_HD", "eval_id": "monnext_skip_0019", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Place apprpriate spin column in collection tube", "order": 1, "step": "1" }, { "desc": "Apply 0.050 mL Buffer EB (Elution)", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 4, "step": "4" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Place apprpriate spin column in collection tube", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Apply 0.050 mL Buffer EB (Elution)", "t": 0.0 }, { "note": "Load sample into microcentrifuge", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 99.0, "video_path": "videos640/MV_02_52_HD.mp4", "video_start": 94.5, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_36", "eval_id": "monnext_clean_0020", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"pipette\",\"ice bucket green container with ice\"],\"history\":[{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":27,\"tds\":27}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded into an Invitrogen E-gel cassette for electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"pipette\",\"ice bucket green container with ice\"],\"history\":[{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":27,\"tds\":27}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded into an Invitrogen E-gel cassette for electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "pipette", "ice bucket green container with ice" ], "history": [ { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 27, "tds": 27 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded into an Invitrogen E-gel cassette for electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 32.9, "video_path": "videos640/DJI_36.mp4", "video_start": 29.75, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_36", "eval_id": "monnext_skip_0020", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"pipette\",\"ice bucket green container with ice\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded into an Invitrogen E-gel cassette for electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"pipette\",\"ice bucket green container with ice\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded into an Invitrogen E-gel cassette for electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "pipette", "ice bucket green container with ice" ], "history": [], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded into an Invitrogen E-gel cassette for electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Load 10–20 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 32.9, "video_path": "videos640/DJI_36.mp4", "video_start": 29.75, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_08", "eval_id": "monnext_clean_0021", "history_variant": "clean", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":27,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":27,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 27, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 45.525, "video_path": "videos640/XM_08.mp4", "video_start": 39.475, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_08", "eval_id": "monnext_skip_0021", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 5 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 45.525, "video_path": "videos640/XM_08.mp4", "video_start": 39.475, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "MV_01_07_RF", "eval_id": "monnext_clean_0022", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man" ], "step": "1", "tas": 11, "tds": 11 } ], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 }, { "note": "Dispose of 5mL pipet tip", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.7, "video_path": "videos640/MV_01_07_RF.mp4", "video_start": 22.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_07_RF", "eval_id": "monnext_skip_0022", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 }, { "note": "Dispose of 5mL pipet tip", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.7, "video_path": "videos640/MV_01_07_RF.mp4", "video_start": 22.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_22", "eval_id": "monnext_clean_0023", "history_variant": "clean", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 10, "tds": 10 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 22, "tds": 12 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 52, "tds": 30 } ], "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "t": 0.0 }, { "note": "Add cytokine(s) to the medium at the desired working concentration.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 92.0, "video_path": "videos640/DJI_22.mp4", "video_start": 84.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_22", "eval_id": "monnext_skip_0023", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 10, "tds": 10 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 22, "tds": 12 } ], "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "t": 0.0 }, { "note": "Add cytokine(s) to the medium at the desired working concentration.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 92.0, "video_path": "videos640/DJI_22.mp4", "video_start": 84.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_05", "eval_id": "monnext_clean_0024", "history_variant": "clean", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":40,\"tds\":10},{\"notes\":[\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\"],\"step\":\"4\",\"tas\":60,\"tds\":20}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":40,\"tds\":10},{\"notes\":[\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\"],\"step\":\"4\",\"tas\":60,\"tds\":20}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes required.", "pipette Adjustable volume pipette capable of measuring 100 µL.", "pipette tips", "marker Used for labeling tubes.", "tube rack Green PCR tube rack." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 30, "tds": 15 }, { "notes": [ "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting." ], "step": "3", "tas": 40, "tds": 10 }, { "notes": [ "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting." ], "step": "4", "tas": 60, "tds": 20 } ], "on": "5", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.", "reagents": [ "sterile water (400 µL) Used as the diluent; 100 µL per tube.", "original sample (100 µL) Labeled as 'S'." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 73.6, "video_path": "videos640/XM_05.mp4", "video_start": 66.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_05", "eval_id": "monnext_skip_0024", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":40,\"tds\":10}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":40,\"tds\":10}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes required.", "pipette Adjustable volume pipette capable of measuring 100 µL.", "pipette tips", "marker Used for labeling tubes.", "tube rack Green PCR tube rack." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 30, "tds": 15 }, { "notes": [ "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting." ], "step": "3", "tas": 40, "tds": 10 } ], "on": "5", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.", "reagents": [ "sterile water (400 µL) Used as the diluent; 100 µL per tube.", "original sample (100 µL) Labeled as 'S'." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 73.6, "video_path": "videos640/XM_05.mp4", "video_start": 66.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_26", "eval_id": "monnext_clean_0025", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 34, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 50.0, "video_path": "videos640/DJI_26.mp4", "video_start": 42.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_26", "eval_id": "monnext_skip_0025", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 50.0, "video_path": "videos640/DJI_26.mp4", "video_start": 42.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_15", "eval_id": "monnext_clean_0026", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 18, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 30.0, "video_path": "videos640/XM_15.mp4", "video_start": 22.4, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_15", "eval_id": "monnext_skip_0026", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 2.1: 10 µL DNA sample", "error_type": "step_skipped", "step_ref": "2.1", "t": 0.0 } ], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.1 was completed before continuing." }, "target_error_step_id": "2.1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 30.0, "video_path": "videos640/XM_15.mp4", "video_start": 22.4, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_24", "eval_id": "monnext_clean_0027", "history_variant": "clean", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":6,\"tds\":6}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokines to Cell Culture", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":6,\"tds\":6}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator HERACELL VIOS 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "pipette controller Used with serological pipettes.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokines.", "6-well culture plate Contains the cell culture.", "inverted microscope EVOS M5000 imaging system." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 6, "tds": 6 } ], "on": "2", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the plate.", "cytokine(s) Added to the fresh medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "t": 0.0 }, { "note": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.0, "video_path": "videos640/DJI_24.mp4", "video_start": 20.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_24", "eval_id": "monnext_skip_0027", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokines to Cell Culture", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator HERACELL VIOS 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "pipette controller Used with serological pipettes.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokines.", "6-well culture plate Contains the cell culture.", "inverted microscope EVOS M5000 imaging system." ], "history": [], "on": "2", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the plate.", "cytokine(s) Added to the fresh medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Disinfect hands thoroughly with 70% ethanol.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "t": 0.0 }, { "note": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.0, "video_path": "videos640/DJI_24.mp4", "video_start": 20.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_18", "eval_id": "monnext_clean_0028", "history_variant": "clean", "operation": "Transformation (correct) replicate 1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":50,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":50,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for transferring DNA and culture.", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 32, "tds": 4 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 38, "tds": 6 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 50, "tds": 12 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 56.2, "video_path": "videos640/DJI_18.mp4", "video_start": 51.8, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_18", "eval_id": "monnext_skip_0028", "history_variant": "skipped_last_step", "operation": "Transformation (correct) replicate 1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for transferring DNA and culture.", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 32, "tds": 4 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 38, "tds": 6 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 56.2, "video_path": "videos640/DJI_18.mp4", "video_start": 51.8, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_57", "eval_id": "monnext_clean_0029", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"pipette Used for adding reagents and mixing.\",\"CO2 incubator Used for cell culture incubation.\",\"6-well plate Used for cell culture in the video instead of a 10 cm dish.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":106,\"tds\":34},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":158,\"tds\":10},{\"notes\":[\"Add the transfection mi x dropwise to the HEK293T cells.\"],\"step\":\"5\",\"tas\":185,\"tds\":18}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentivirus Packaging and Transfection of HEK293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"pipette Used for adding reagents and mixing.\",\"CO2 incubator Used for cell culture incubation.\",\"6-well plate Used for cell culture in the video instead of a 10 cm dish.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":106,\"tds\":34},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":158,\"tds\":10},{\"notes\":[\"Add the transfection mi x dropwise to the HEK293T cells.\"],\"step\":\"5\",\"tas\":185,\"tds\":18}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "pipette Used for adding reagents and mixing.", "CO2 incubator Used for cell culture incubation.", "6-well plate Used for cell culture in the video instead of a 10 cm dish." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 106, "tds": 34 }, { "notes": [ "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish." ], "step": "1", "tas": 158, "tds": 10 }, { "notes": [ "Add the transfection mi x dropwise to the HEK293T cells." ], "step": "5", "tas": 185, "tds": 18 } ], "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 193.425, "video_path": "videos640/DJI_57.mp4", "video_start": 189.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_57", "eval_id": "monnext_skip_0029", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"pipette Used for adding reagents and mixing.\",\"CO2 incubator Used for cell culture incubation.\",\"6-well plate Used for cell culture in the video instead of a 10 cm dish.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":106,\"tds\":34},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":158,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentivirus Packaging and Transfection of HEK293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"pipette Used for adding reagents and mixing.\",\"CO2 incubator Used for cell culture incubation.\",\"6-well plate Used for cell culture in the video instead of a 10 cm dish.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":106,\"tds\":34},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":158,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "pipette Used for adding reagents and mixing.", "CO2 incubator Used for cell culture incubation.", "6-well plate Used for cell culture in the video instead of a 10 cm dish." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 106, "tds": 34 }, { "notes": [ "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish." ], "step": "1", "tas": 158, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Add the transfection mi x dropwise to the HEK293T cells.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 193.425, "video_path": "videos640/DJI_57.mp4", "video_start": 189.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_21", "eval_id": "monnext_clean_0030", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 22, "tds": 1 } ], "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 24.5, "video_path": "videos640/DJI_21.mp4", "video_start": 22.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_21", "eval_id": "monnext_skip_0030", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 } ], "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Mix gently by flicking the tube 4-5 times.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 24.5, "video_path": "videos640/DJI_21.mp4", "video_start": 22.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_30", "eval_id": "monnext_clean_0031", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 }, { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 49.0, "video_path": "videos640/DJI_30.mp4", "video_start": 41.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_skip_0031", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Add 1 μL of Reverse Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 }, { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 49.0, "video_path": "videos640/DJI_30.mp4", "video_start": 41.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_clean_0032", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 47, "tds": 9 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 55.75, "video_path": "videos640/XM_23.mp4", "video_start": 50.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_23", "eval_id": "monnext_skip_0032", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add 1 μL of Reverse Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 55.75, "video_path": "videos640/XM_23.mp4", "video_start": 50.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_23", "eval_id": "monnext_clean_0033", "history_variant": "clean", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":38,\"tds\":15},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":72,\"tds\":29},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":93,\"tds\":11},{\"notes\":[\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\"],\"step\":\"6\",\"tas\":124,\"tds\":20}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":38,\"tds\":15},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":72,\"tds\":29},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":93,\"tds\":11},{\"notes\":[\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\"],\"step\":\"6\",\"tas\":124,\"tds\":20}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 38, "tds": 15 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 72, "tds": 29 }, { "notes": [ "Add cytokine(s) to the medium at the desired working concentration." ], "step": "5", "tas": 93, "tds": 11 }, { "notes": [ "Examine the cells under an inverted microscope to assess cell health, density, and morphology." ], "step": "6", "tas": 124, "tds": 20 } ], "on": "7", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Place the plate back into the incubator at the correct conditions.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 135.75, "video_path": "videos640/DJI_23.mp4", "video_start": 130.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_23", "eval_id": "monnext_skip_0033", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":38,\"tds\":15},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":72,\"tds\":29},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":93,\"tds\":11}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":38,\"tds\":15},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":72,\"tds\":29},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":93,\"tds\":11}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 38, "tds": 15 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 72, "tds": 29 }, { "notes": [ "Add cytokine(s) to the medium at the desired working concentration." ], "step": "5", "tas": 93, "tds": 11 } ], "on": "7", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 6: Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Place the plate back into the incubator at the correct conditions.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 135.75, "video_path": "videos640/DJI_23.mp4", "video_start": 130.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_03_04_TD", "eval_id": "monnext_clean_0034", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\"],\"step\":\"1\",\"tas\":179,\"tds\":179},{\"notes\":[\"Add the agarose powder to the Erlenmeyer flask\"],\"step\":\"2\",\"tas\":208,\"tds\":23}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add the agarose powder to the Erlenmeyer flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\"],\"step\":\"1\",\"tas\":179,\"tds\":179},{\"notes\":[\"Add the agarose powder to the Erlenmeyer flask\"],\"step\":\"2\",\"tas\":208,\"tds\":23}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add the agarose powder to the Erlenmeyer flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Weigh out 0.70g of agarose powder using a weigh boat and digital scale" ], "step": "1", "tas": 179, "tds": 179 }, { "notes": [ "Add the agarose powder to the Erlenmeyer flask" ], "step": "2", "tas": 208, "tds": 23 } ], "on": "3", "protocol": [ { "desc": "Weigh out 0.70g of agarose powder using a weigh boat and digital scale", "order": 1, "step": "1" }, { "desc": "Add the agarose powder to the Erlenmeyer flask", "order": 2, "step": "2" }, { "desc": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 246.0, "video_path": "videos640/MV_03_04_TD.mp4", "video_start": 228.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_04_TD", "eval_id": "monnext_skip_0034", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\"],\"step\":\"1\",\"tas\":179,\"tds\":179}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add the agarose powder to the Erlenmeyer flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\"],\"step\":\"1\",\"tas\":179,\"tds\":179}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add the agarose powder to the Erlenmeyer flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Weigh out 0.70g of agarose powder using a weigh boat and digital scale" ], "step": "1", "tas": 179, "tds": 179 } ], "on": "3", "protocol": [ { "desc": "Weigh out 0.70g of agarose powder using a weigh boat and digital scale", "order": 1, "step": "1" }, { "desc": "Add the agarose powder to the Erlenmeyer flask", "order": 2, "step": "2" }, { "desc": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Add the agarose powder to the Erlenmeyer flask", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 246.0, "video_path": "videos640/MV_03_04_TD.mp4", "video_start": 228.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_03", "eval_id": "monnext_clean_0035", "history_variant": "clean", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 17, "tds": 16 } ], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 }, { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 35.0, "video_path": "videos640/DJI_03.mp4", "video_start": 27.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_03", "eval_id": "monnext_skip_0035", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Add reagent 1 into a sterile 1.5 mL EP tube.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 }, { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 35.0, "video_path": "videos640/DJI_03.mp4", "video_start": 27.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_35", "eval_id": "monnext_clean_0036", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 } ], "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 79.725, "video_path": "videos640/XM_35.mp4", "video_start": 69.275, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_35", "eval_id": "monnext_skip_0036", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [], "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 79.725, "video_path": "videos640/XM_35.mp4", "video_start": 69.275, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_62", "eval_id": "monnext_clean_0037", "history_variant": "clean", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"6-well plate Contains producer cells and supernatant\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":10,\"tds\":10}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"6-well plate Contains producer cells and supernatant\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":10,\"tds\":10}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "6-well plate Contains producer cells and supernatant" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 10, "tds": 10 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 50.0, "video_path": "videos640/DJI_62.mp4", "video_start": 42.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_62", "eval_id": "monnext_skip_0037", "history_variant": "skipped_last_step", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"6-well plate Contains producer cells and supernatant\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"6-well plate Contains producer cells and supernatant\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "6-well plate Contains producer cells and supernatant" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 50.0, "video_path": "videos640/DJI_62.mp4", "video_start": 42.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_09", "eval_id": "monnext_clean_0038", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 }, { "note": "Mix well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 69.0, "video_path": "videos640/DJI_09.mp4", "video_start": 61.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_09", "eval_id": "monnext_skip_0038", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add reagent 2 into the EP tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 }, { "note": "Mix well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 69.0, "video_path": "videos640/DJI_09.mp4", "video_start": 61.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_43", "eval_id": "monnext_clean_0039", "history_variant": "clean", "operation": "PSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32},{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":98,\"tds\":38}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of iPSC-fibroblasts", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32},{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":98,\"tds\":38}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Incubator Used for pre-seeding and post-infection culture", "96-well plate Pre-seeded with iPSC-fibroblasts", "Multichannel pipette Used for medium replacement and buffer addition", "Single channel pipette Used for adding virus to specific wells", "Marker Used for recording infection details on the plate", "Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step" ], "history": [ { "notes": [ "Retrieve pre-seeded iPSC-fibroblast plates from the incubator." ], "step": "2", "tas": 8, "tds": 7 }, { "notes": [ "(Optional) Replace culture medium with fresh infection medium as needed." ], "step": "3", "tas": 45, "tds": 32 }, { "notes": [ "Add 20 µL of the appropriate virus to each well." ], "step": "4", "tas": 98, "tds": 38 } ], "on": "5", "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus", "Control lentivirus (20 µL per well)", "Infection medium Fresh culture medium used for infection" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Gently rock the plate to evenly distribute the virus.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 104.65, "video_path": "videos640/XM_43.mp4", "video_start": 101.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_43", "eval_id": "monnext_skip_0039", "history_variant": "skipped_last_step", "operation": "PSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of iPSC-fibroblasts", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Incubator Used for pre-seeding and post-infection culture", "96-well plate Pre-seeded with iPSC-fibroblasts", "Multichannel pipette Used for medium replacement and buffer addition", "Single channel pipette Used for adding virus to specific wells", "Marker Used for recording infection details on the plate", "Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step" ], "history": [ { "notes": [ "Retrieve pre-seeded iPSC-fibroblast plates from the incubator." ], "step": "2", "tas": 8, "tds": 7 }, { "notes": [ "(Optional) Replace culture medium with fresh infection medium as needed." ], "step": "3", "tas": 45, "tds": 32 } ], "on": "5", "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus", "Control lentivirus (20 µL per well)", "Infection medium Fresh culture medium used for infection" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add 20 µL of the appropriate virus to each well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Gently rock the plate to evenly distribute the virus.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 104.65, "video_path": "videos640/XM_43.mp4", "video_start": 101.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_11", "eval_id": "monnext_clean_0040", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 21, "tds": 9 } ], "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 32.425, "video_path": "videos640/XM_11.mp4", "video_start": 28.575, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_11", "eval_id": "monnext_skip_0040", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [], "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Load 10 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 32.425, "video_path": "videos640/XM_11.mp4", "video_start": 28.575, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0041", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 } ], "on": "10", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "10", "target_delta": { "current_step": "10", "errors": [], "new_notes": [ { "note": "Incubate at 37°C for 1 minutes", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "10", "target_visible_step_ids": [ "10" ], "task_type": "monitor_next_step_delta", "video_end": 111.75, "video_path": "videos640/DJI_07.mp4", "video_start": 106.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0041", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 } ], "on": "10", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "10", "target_delta": { "current_step": "10", "errors": [ { "description": "The state is missing previously completed step 9: Ensure even distribution by tilting dish", "error_type": "step_skipped", "step_ref": "9", "t": 0.0 } ], "new_notes": [ { "note": "Incubate at 37°C for 1 minutes", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 9 was completed before continuing." }, "target_error_step_id": "9", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "10", "target_visible_step_ids": [ "10" ], "task_type": "monitor_next_step_delta", "video_end": 111.75, "video_path": "videos640/DJI_07.mp4", "video_start": 106.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_09", "eval_id": "monnext_clean_0042", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette Pre-cast agarose gel cassette.", "E-gel power base Power supply and base for the E-gel cassette.", "Pipette Used to load samples into the gel wells.", "Pipette tips Disposable tips for the pipette." ], "history": [ { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "1", "tas": 9, "tds": 9 } ], "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.", "reagents": [ "DNA sample (10 µL) Prepared DNA sample for electrophoresis.", "DNA ladder (10 µL) Used as a size standard." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Load 10 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 27.0, "video_path": "videos640/XM_09.mp4", "video_start": 19.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_09", "eval_id": "monnext_skip_0042", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette Pre-cast agarose gel cassette.", "E-gel power base Power supply and base for the E-gel cassette.", "Pipette Used to load samples into the gel wells.", "Pipette tips Disposable tips for the pipette." ], "history": [], "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.", "reagents": [ "DNA sample (10 µL) Prepared DNA sample for electrophoresis.", "DNA ladder (10 µL) Used as a size standard." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Place the Invitrogen E-gel cassette into the E-gel power base.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Load 10 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 27.0, "video_path": "videos640/XM_09.mp4", "video_start": 19.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_11", "eval_id": "monnext_clean_0043", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9},{\"notes\":[\"Add 10 µL of DNA ladder into a separate well.\"],\"step\":\"3\",\"tas\":34,\"tds\":7}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9},{\"notes\":[\"Add 10 µL of DNA ladder into a separate well.\"],\"step\":\"3\",\"tas\":34,\"tds\":7}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 21, "tds": 9 }, { "notes": [ "Add 10 µL of DNA ladder into a separate well." ], "step": "3", "tas": 34, "tds": 7 } ], "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 39.65, "video_path": "videos640/XM_11.mp4", "video_start": 36.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_11", "eval_id": "monnext_skip_0043", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 21, "tds": 9 } ], "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [ { "description": "The state is missing previously completed step 3: Add 10 µL of DNA ladder into a separate well.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 39.65, "video_path": "videos640/XM_11.mp4", "video_start": 36.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_22", "eval_id": "monnext_clean_0044", "history_variant": "clean", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":117,\"tds\":29}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":117,\"tds\":29}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 10, "tds": 10 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 22, "tds": 12 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 52, "tds": 30 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 88, "tds": 36 }, { "notes": [ "Add cytokine(s) to the medium at the desired working concentration." ], "step": "5", "tas": 117, "tds": 29 } ], "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 134.825, "video_path": "videos640/DJI_22.mp4", "video_start": 122.175, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_22", "eval_id": "monnext_skip_0044", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 10, "tds": 10 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 22, "tds": 12 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 52, "tds": 30 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 88, "tds": 36 } ], "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Add cytokine(s) to the medium at the desired working concentration.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 134.825, "video_path": "videos640/DJI_22.mp4", "video_start": 122.175, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_01_11_CH", "eval_id": "monnext_clean_0045", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Attach pipet to pipetterman without touching the glass" ], "step": "1", "tas": 0, "tds": 0 } ], "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Attach 5mL pipet tip to pipette man", "t": 0.0 }, { "note": "Move pipet tip and fluid waste disposals to easily reachable location", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 8.7, "video_path": "videos640/MV_01_11_CH.mp4", "video_start": 3.3, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_11_CH", "eval_id": "monnext_skip_0045", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Attach pipet to pipetterman without touching the glass", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Attach 5mL pipet tip to pipette man", "t": 0.0 }, { "note": "Move pipet tip and fluid waste disposals to easily reachable location", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 8.7, "video_path": "videos640/MV_01_11_CH.mp4", "video_start": 3.3, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "XM_03", "eval_id": "monnext_clean_0046", "history_variant": "clean", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8},{\"notes\":[\"Add template DNA (in the tube labeled T).\"],\"step\":\"4\",\"tas\":31,\"tds\":0},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"5\",\"tas\":39,\"tds\":8}],\"on\":\"6\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8},{\"notes\":[\"Add template DNA (in the tube labeled T).\"],\"step\":\"4\",\"tas\":31,\"tds\":0},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"5\",\"tas\":39,\"tds\":8}],\"on\":\"6\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "adjustable volume pipette", "pipette tips", "0.2 mL PCR tubes", "tube rack", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 21, "tds": 11 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 30, "tds": 8 }, { "notes": [ "Add template DNA (in the tube labeled T)." ], "step": "4", "tas": 31, "tds": 0 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "5", "tas": 39, "tds": 8 } ], "on": "6", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.", "reagents": [ "Master Mix In the tube labeled M", "Forward Primer In the tube labeled F", "Reverse Primer In the tube labeled R", "Template DNA In the tube labeled T" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 46.2, "video_path": "videos640/XM_03.mp4", "video_start": 41.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_03", "eval_id": "monnext_skip_0046", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8},{\"notes\":[\"Add template DNA (in the tube labeled T).\"],\"step\":\"4\",\"tas\":31,\"tds\":0}],\"on\":\"6\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8},{\"notes\":[\"Add template DNA (in the tube labeled T).\"],\"step\":\"4\",\"tas\":31,\"tds\":0}],\"on\":\"6\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "adjustable volume pipette", "pipette tips", "0.2 mL PCR tubes", "tube rack", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 21, "tds": 11 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 30, "tds": 8 }, { "notes": [ "Add template DNA (in the tube labeled T)." ], "step": "4", "tas": 31, "tds": 0 } ], "on": "6", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.", "reagents": [ "Master Mix In the tube labeled M", "Forward Primer In the tube labeled F", "Reverse Primer In the tube labeled R", "Template DNA In the tube labeled T" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 46.2, "video_path": "videos640/XM_03.mp4", "video_start": 41.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_08", "eval_id": "monnext_clean_0047", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"11\",\"tas\":112,\"tds\":6}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"11\",\"tas\":112,\"tds\":6}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 }, { "notes": [ "Add 3ml PBS to dish" ], "step": "8", "tas": 85, "tds": 8 }, { "notes": [ "Gently rock dish to wash cell surface" ], "step": "9", "tas": 89, "tds": 2 }, { "notes": [ "Aspirate PBS completely" ], "step": "10", "tas": 94, "tds": 4 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "11", "tas": 112, "tds": 6 } ], "on": "12", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "13", "target_delta": { "current_step": "13", "errors": [], "new_notes": [ { "note": "Ensure even distribution by tilting dish", "t": 0.0 }, { "note": "Gently tap sides of dish to help detachment", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "12", "target_visible_step_ids": [ "12", "13" ], "task_type": "monitor_next_step_delta", "video_end": 125.0, "video_path": "videos640/DJI_08.mp4", "video_start": 120.1, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_08", "eval_id": "monnext_skip_0047", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 }, { "notes": [ "Add 3ml PBS to dish" ], "step": "8", "tas": 85, "tds": 8 }, { "notes": [ "Gently rock dish to wash cell surface" ], "step": "9", "tas": 89, "tds": 2 }, { "notes": [ "Aspirate PBS completely" ], "step": "10", "tas": 94, "tds": 4 } ], "on": "12", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "13", "target_delta": { "current_step": "13", "errors": [ { "description": "The state is missing previously completed step 11: Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "error_type": "step_skipped", "step_ref": "11", "t": 0.0 } ], "new_notes": [ { "note": "Ensure even distribution by tilting dish", "t": 0.0 }, { "note": "Gently tap sides of dish to help detachment", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 11 was completed before continuing." }, "target_error_step_id": "11", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "12", "target_visible_step_ids": [ "12", "13" ], "task_type": "monitor_next_step_delta", "video_end": 125.0, "video_path": "videos640/DJI_08.mp4", "video_start": 120.1, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_20", "eval_id": "monnext_clean_0048", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":35,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":35,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 35, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "7" ], "task_type": "monitor_next_step_delta", "video_end": 53.0, "video_path": "videos640/XM_20.mp4", "video_start": 45.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_20", "eval_id": "monnext_skip_0048", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "7" ], "task_type": "monitor_next_step_delta", "video_end": 53.0, "video_path": "videos640/XM_20.mp4", "video_start": 45.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_11", "eval_id": "monnext_clean_0049", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":49,\"tds\":1}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":49,\"tds\":1}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 38, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 48, "tds": 9 }, { "notes": [ "Incubate at room temperature for 20 min." ], "step": "5", "tas": 49, "tds": 1 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 }, { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 60.0, "video_path": "videos640/DJI_11.mp4", "video_start": 53.3, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_11", "eval_id": "monnext_skip_0049", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 38, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 48, "tds": 9 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Incubate at room temperature for 20 min.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 }, { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 60.0, "video_path": "videos640/DJI_11.mp4", "video_start": 53.3, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_08_CH", "eval_id": "monnext_clean_0050", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man" ], "step": "1", "tas": 11, "tds": 11 } ], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 22.625, "video_path": "videos640/MV_01_08_CH.mp4", "video_start": 14.375, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_08_CH", "eval_id": "monnext_skip_0050", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 22.625, "video_path": "videos640/MV_01_08_CH.mp4", "video_start": 14.375, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_38", "eval_id": "monnext_clean_0051", "history_variant": "clean", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":14,\"tds\":14},{\"notes\":[\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\"],\"step\":\"2\",\"tas\":45,\"tds\":31}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtering", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":14,\"tds\":14},{\"notes\":[\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\"],\"step\":\"2\",\"tas\":45,\"tds\":31}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 14, "tds": 14 }, { "notes": [ "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris." ], "step": "2", "tas": 45, "tds": 31 } ], "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 72.5, "video_path": "videos640/XM_38.mp4", "video_start": 54.5, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_38", "eval_id": "monnext_skip_0051", "history_variant": "skipped_last_step", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":14,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtering", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":14,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 14, "tds": 14 } ], "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 72.5, "video_path": "videos640/XM_38.mp4", "video_start": 54.5, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_49", "eval_id": "monnext_clean_0052", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":17,\"tds\":17}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":17,\"tds\":17}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂)." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 17, "tds": 17 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 }, { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 33.15, "video_path": "videos640/DJI_49.mp4", "video_start": 26.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_49", "eval_id": "monnext_skip_0052", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂)." ], "history": [], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 }, { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 33.15, "video_path": "videos640/DJI_49.mp4", "video_start": 26.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_09_CH", "eval_id": "monnext_clean_0053", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve flask of cells to be passaged\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"Check cell density of flask\"],\"step\":\"2\",\"tas\":35,\"tds\":31},{\"notes\":[\"Grab new pipetterman 5mL tip\"],\"step\":\"3\",\"tas\":47,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve flask of cells to be passaged\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"Check cell density of flask\"],\"step\":\"2\",\"tas\":35,\"tds\":31},{\"notes\":[\"Grab new pipetterman 5mL tip\"],\"step\":\"3\",\"tas\":47,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve flask of cells to be passaged" ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "Check cell density of flask" ], "step": "2", "tas": 35, "tds": 31 }, { "notes": [ "Grab new pipetterman 5mL tip" ], "step": "3", "tas": 47, "tds": 12 } ], "on": "4", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 60.95, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 51.05, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_09_CH", "eval_id": "monnext_skip_0053", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve flask of cells to be passaged\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"Check cell density of flask\"],\"step\":\"2\",\"tas\":35,\"tds\":31}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve flask of cells to be passaged\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"Check cell density of flask\"],\"step\":\"2\",\"tas\":35,\"tds\":31}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve flask of cells to be passaged" ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "Check cell density of flask" ], "step": "2", "tas": 35, "tds": 31 } ], "on": "4", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Grab new pipetterman 5mL tip", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 60.95, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 51.05, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_05", "eval_id": "monnext_clean_0054", "history_variant": "clean", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":40,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15},{\"notes\":[\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\"],\"step\":\"3\",\"tas\":40,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes required.", "pipette Adjustable volume pipette capable of measuring 100 µL.", "pipette tips", "marker Used for labeling tubes.", "tube rack Green PCR tube rack." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 30, "tds": 15 }, { "notes": [ "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting." ], "step": "3", "tas": 40, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.", "reagents": [ "sterile water (400 µL) Used as the diluent; 100 µL per tube.", "original sample (100 µL) Labeled as 'S'." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 64.0, "video_path": "videos640/XM_05.mp4", "video_start": 56.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_05", "eval_id": "monnext_skip_0054", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes required.", "pipette Adjustable volume pipette capable of measuring 100 µL.", "pipette tips", "marker Used for labeling tubes.", "tube rack Green PCR tube rack." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 30, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.", "reagents": [ "sterile water (400 µL) Used as the diluent; 100 µL per tube.", "original sample (100 µL) Labeled as 'S'." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 64.0, "video_path": "videos640/XM_05.mp4", "video_start": 56.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_05_LF", "eval_id": "monnext_clean_0055", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place cell cytometer and calculator on top of cart near hood\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place cell cytometer and calculator on top of cart near hood\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place cell cytometer and calculator on top of cart near hood" ], "step": "1", "tas": 12, "tds": 12 } ], "on": "2", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "t": 0.0 }, { "note": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 62.0, "video_path": "videos640/MV_01_05_LF.mp4", "video_start": 54.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_05_LF", "eval_id": "monnext_skip_0055", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Place cell cytometer and calculator on top of cart near hood", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "t": 0.0 }, { "note": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 62.0, "video_path": "videos640/MV_01_05_LF.mp4", "video_start": 54.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_08_HG", "eval_id": "monnext_clean_0056", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder" ], "step": "1", "tas": 27, "tds": 27 } ], "on": "2", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Gently pull the comb straight upward out of the gel", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 300.8, "video_path": "videos640/MV_03_08_HG.mp4", "video_start": 283.2, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_08_HG", "eval_id": "monnext_skip_0056", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Gently pull the comb straight upward out of the gel", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 300.8, "video_path": "videos640/MV_03_08_HG.mp4", "video_start": 283.2, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_08_HD", "eval_id": "monnext_clean_0057", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man" ], "step": "1", "tas": 11, "tds": 11 } ], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 }, { "note": "Dispose of 5mL pipet tip", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.7, "video_path": "videos640/MV_01_08_HD.mp4", "video_start": 22.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_08_HD", "eval_id": "monnext_skip_0057", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 }, { "note": "Dispose of 5mL pipet tip", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.7, "video_path": "videos640/MV_01_08_HD.mp4", "video_start": 22.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_28", "eval_id": "monnext_clean_0058", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 65.15, "video_path": "videos640/DJI_28.mp4", "video_start": 58.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_28", "eval_id": "monnext_skip_0058", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 65.15, "video_path": "videos640/DJI_28.mp4", "video_start": 58.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_26", "eval_id": "monnext_clean_0059", "history_variant": "clean", "operation": "RNA_Extraction_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette Used for aspirating, washing, and transferring\",\"pipette tips\",\"1.5 mL microcentrifuge tube RNase-free\",\"cell culture dish Contains the cells being processed\",\"marker pen Used for labeling tubes\"],\"history\":[{\"notes\":[\"Aspirate and discard the culture medium from the cells.\"],\"step\":\"1\",\"tas\":26,\"tds\":11},{\"notes\":[\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\"],\"step\":\"3\",\"tas\":35,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Aspirate and discard the culture medium from the cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash the cells once with 1 mL sterile PBS to remove residual medium.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette up and down 5–10 times to lyse and homogenize the cells completely.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.\",\"reagents\":[\"PBS (1 mL) Used for washing cells\",\"RNA lysis buffer (500 µL) Added directly to cells for lysis\",\"70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "RNA Extraction - Cell Lysis and Homogenization", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette Used for aspirating, washing, and transferring\",\"pipette tips\",\"1.5 mL microcentrifuge tube RNase-free\",\"cell culture dish Contains the cells being processed\",\"marker pen Used for labeling tubes\"],\"history\":[{\"notes\":[\"Aspirate and discard the culture medium from the cells.\"],\"step\":\"1\",\"tas\":26,\"tds\":11},{\"notes\":[\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\"],\"step\":\"3\",\"tas\":35,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Aspirate and discard the culture medium from the cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash the cells once with 1 mL sterile PBS to remove residual medium.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette up and down 5–10 times to lyse and homogenize the cells completely.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.\",\"reagents\":[\"PBS (1 mL) Used for washing cells\",\"RNA lysis buffer (500 µL) Added directly to cells for lysis\",\"70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette Used for aspirating, washing, and transferring", "pipette tips", "1.5 mL microcentrifuge tube RNase-free", "cell culture dish Contains the cells being processed", "marker pen Used for labeling tubes" ], "history": [ { "notes": [ "Aspirate and discard the culture medium from the cells." ], "step": "1", "tas": 26, "tds": 11 }, { "notes": [ "Add 500 µL of RNA lysis buffer directly onto the cells in the dish." ], "step": "3", "tas": 35, "tds": 9 } ], "on": "4", "protocol": [ { "desc": "Aspirate and discard the culture medium from the cells.", "order": 1, "step": "1" }, { "desc": "Wash the cells once with 1 mL sterile PBS to remove residual medium.", "order": 2, "step": "2" }, { "desc": "Add 500 µL of RNA lysis buffer directly onto the cells in the dish.", "order": 3, "step": "3" }, { "desc": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "order": 4, "step": "4" }, { "desc": "Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.", "order": 5, "step": "5" }, { "desc": "Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.", "reagents": [ "PBS (1 mL) Used for washing cells", "RNA lysis buffer (500 µL) Added directly to cells for lysis", "70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "t": 0.0 }, { "note": "Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 62.15, "video_path": "videos640/XM_26.mp4", "video_start": 55.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_26", "eval_id": "monnext_skip_0059", "history_variant": "skipped_last_step", "operation": "RNA_Extraction_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette Used for aspirating, washing, and transferring\",\"pipette tips\",\"1.5 mL microcentrifuge tube RNase-free\",\"cell culture dish Contains the cells being processed\",\"marker pen Used for labeling tubes\"],\"history\":[{\"notes\":[\"Aspirate and discard the culture medium from the cells.\"],\"step\":\"1\",\"tas\":26,\"tds\":11}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Aspirate and discard the culture medium from the cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash the cells once with 1 mL sterile PBS to remove residual medium.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette up and down 5–10 times to lyse and homogenize the cells completely.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.\",\"reagents\":[\"PBS (1 mL) Used for washing cells\",\"RNA lysis buffer (500 µL) Added directly to cells for lysis\",\"70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "RNA Extraction - Cell Lysis and Homogenization", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette Used for aspirating, washing, and transferring\",\"pipette tips\",\"1.5 mL microcentrifuge tube RNase-free\",\"cell culture dish Contains the cells being processed\",\"marker pen Used for labeling tubes\"],\"history\":[{\"notes\":[\"Aspirate and discard the culture medium from the cells.\"],\"step\":\"1\",\"tas\":26,\"tds\":11}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Aspirate and discard the culture medium from the cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash the cells once with 1 mL sterile PBS to remove residual medium.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette up and down 5–10 times to lyse and homogenize the cells completely.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.\",\"reagents\":[\"PBS (1 mL) Used for washing cells\",\"RNA lysis buffer (500 µL) Added directly to cells for lysis\",\"70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette Used for aspirating, washing, and transferring", "pipette tips", "1.5 mL microcentrifuge tube RNase-free", "cell culture dish Contains the cells being processed", "marker pen Used for labeling tubes" ], "history": [ { "notes": [ "Aspirate and discard the culture medium from the cells." ], "step": "1", "tas": 26, "tds": 11 } ], "on": "4", "protocol": [ { "desc": "Aspirate and discard the culture medium from the cells.", "order": 1, "step": "1" }, { "desc": "Wash the cells once with 1 mL sterile PBS to remove residual medium.", "order": 2, "step": "2" }, { "desc": "Add 500 µL of RNA lysis buffer directly onto the cells in the dish.", "order": 3, "step": "3" }, { "desc": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "order": 4, "step": "4" }, { "desc": "Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.", "order": 5, "step": "5" }, { "desc": "Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.", "reagents": [ "PBS (1 mL) Used for washing cells", "RNA lysis buffer (500 µL) Added directly to cells for lysis", "70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 500 µL of RNA lysis buffer directly onto the cells in the dish.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "t": 0.0 }, { "note": "Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 62.15, "video_path": "videos640/XM_26.mp4", "video_start": 55.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_03_CH", "eval_id": "monnext_clean_0060", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Disinfect Hood surface using ethanol\"],\"step\":\"1\",\"tas\":23,\"tds\":23}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Disinfect Hood surface using ethanol\"],\"step\":\"1\",\"tas\":23,\"tds\":23}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Disinfect Hood surface using ethanol" ], "step": "1", "tas": 23, "tds": 23 } ], "on": "2", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" }, { "desc": "Grab cell media, trypsin, and lypan blue (reagents)", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "place sterile 5mL pipette man pipet tip on vent in front of hood", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 27.65, "video_path": "videos640/MV_01_03_CH.mp4", "video_start": 24.35, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_03_CH", "eval_id": "monnext_skip_0060", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" }, { "desc": "Grab cell media, trypsin, and lypan blue (reagents)", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Disinfect Hood surface using ethanol", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "place sterile 5mL pipette man pipet tip on vent in front of hood", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 27.65, "video_path": "videos640/MV_01_03_CH.mp4", "video_start": 24.35, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_54", "eval_id": "monnext_clean_0061", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":43,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":43,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 30, "tds": 25 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 43, "tds": 12 } ], "on": "4", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Incubate the mixture at room temperature for 15 minutes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 76.075, "video_path": "videos640/DJI_54.mp4", "video_start": 68.925, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_54", "eval_id": "monnext_skip_0061", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 30, "tds": 25 } ], "on": "4", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Incubate the mixture at room temperature for 15 minutes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 76.075, "video_path": "videos640/DJI_54.mp4", "video_start": 68.925, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_19", "eval_id": "monnext_clean_0062", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":35,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":35,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 25, "tds": 9 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 35, "tds": 9 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 }, { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 52.0, "video_path": "videos640/XM_19.mp4", "video_start": 44.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_19", "eval_id": "monnext_skip_0062", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 25, "tds": 9 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Add 1 μL of Reverse Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 }, { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 52.0, "video_path": "videos640/XM_19.mp4", "video_start": 44.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_03", "eval_id": "monnext_clean_0063", "history_variant": "clean", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 17, "tds": 16 } ], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 27.3, "video_path": "videos640/DJI_03.mp4", "video_start": 20.7, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_03", "eval_id": "monnext_skip_0063", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Add reagent 1 into a sterile 1.5 mL EP tube.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 27.3, "video_path": "videos640/DJI_03.mp4", "video_start": 20.7, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_23", "eval_id": "monnext_clean_0064", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":73,\"tds\":14},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":100,\"tds\":27}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":73,\"tds\":14},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":100,\"tds\":27}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 73, "tds": 14 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 100, "tds": 27 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 113.6, "video_path": "videos640/XM_23.mp4", "video_start": 109.1, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_skip_0064", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":73,\"tds\":14}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":73,\"tds\":14}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 73, "tds": 14 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 7: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 113.6, "video_path": "videos640/XM_23.mp4", "video_start": 109.1, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_clean_0065", "history_variant": "clean", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 } ], "on": "2", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Get all reagents", "t": 0.0 }, { "note": "Spray all materials with 70% ethanol before placing in hood", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 14.0, "video_path": "videos640/DJI_06.mp4", "video_start": 6.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_skip_0065", "history_variant": "skipped_last_step", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [], "on": "2", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Spray hands with 70% ethanol", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Get all reagents", "t": 0.0 }, { "note": "Spray all materials with 70% ethanol before placing in hood", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 14.0, "video_path": "videos640/DJI_06.mp4", "video_start": 6.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_04", "eval_id": "monnext_clean_0066", "history_variant": "clean", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips in a box\",\"PCR tubes 0.2 mL sterile tubes\",\"Tube rack Green and blue racks for holding tubes\",\"Thermocycler Instrument for PCR amplification\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":8},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":27,\"tds\":8}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips in a box\",\"PCR tubes 0.2 mL sterile tubes\",\"Tube rack Green and blue racks for holding tubes\",\"Thermocycler Instrument for PCR amplification\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":8},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":27,\"tds\":8}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips in a box", "PCR tubes 0.2 mL sterile tubes", "Tube rack Green and blue racks for holding tubes", "Thermocycler Instrument for PCR amplification" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 18, "tds": 8 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 27, "tds": 8 } ], "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add template DNA (in the tube labeled T).", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 39.35, "video_path": "videos640/XM_04.mp4", "video_start": 34.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_04", "eval_id": "monnext_skip_0066", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips in a box\",\"PCR tubes 0.2 mL sterile tubes\",\"Tube rack Green and blue racks for holding tubes\",\"Thermocycler Instrument for PCR amplification\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":8}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips in a box\",\"PCR tubes 0.2 mL sterile tubes\",\"Tube rack Green and blue racks for holding tubes\",\"Thermocycler Instrument for PCR amplification\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":8}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips in a box", "PCR tubes 0.2 mL sterile tubes", "Tube rack Green and blue racks for holding tubes", "Thermocycler Instrument for PCR amplification" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 18, "tds": 8 } ], "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add Reverse Primer (in the tube labeled R).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add template DNA (in the tube labeled T).", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 39.35, "video_path": "videos640/XM_04.mp4", "video_start": 34.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_45", "eval_id": "monnext_clean_0067", "history_variant": "clean", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette Used for initial collection\",\"repeater pipette Used for aliquoting into 1.5 mL tubes\",\"TC hood Tissue culture hood for sterile work\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter into a 15 mL tube to remove debris, and then aliquoting the filtered virus into 1.5 mL microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette Used for initial collection\",\"repeater pipette Used for aliquoting into 1.5 mL tubes\",\"TC hood Tissue culture hood for sterile work\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter into a 15 mL tube to remove debris, and then aliquoting the filtered virus into 1.5 mL microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette Used for initial collection", "repeater pipette Used for aliquoting into 1.5 mL tubes", "TC hood Tissue culture hood for sterile work" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 9, "tds": 9 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter into a 15 mL tube to remove debris, and then aliquoting the filtered virus into 1.5 mL microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 47.0, "video_path": "videos640/DJI_45.mp4", "video_start": 39.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_45", "eval_id": "monnext_skip_0067", "history_variant": "skipped_last_step", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette Used for initial collection\",\"repeater pipette Used for aliquoting into 1.5 mL tubes\",\"TC hood Tissue culture hood for sterile work\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter into a 15 mL tube to remove debris, and then aliquoting the filtered virus into 1.5 mL microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette Used for initial collection\",\"repeater pipette Used for aliquoting into 1.5 mL tubes\",\"TC hood Tissue culture hood for sterile work\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter into a 15 mL tube to remove debris, and then aliquoting the filtered virus into 1.5 mL microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette Used for initial collection", "repeater pipette Used for aliquoting into 1.5 mL tubes", "TC hood Tissue culture hood for sterile work" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter into a 15 mL tube to remove debris, and then aliquoting the filtered virus into 1.5 mL microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 47.0, "video_path": "videos640/DJI_45.mp4", "video_start": 39.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_07", "eval_id": "monnext_clean_0068", "history_variant": "clean", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":25,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":25,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes labeled 1-4.", "pipette Used for liquid handling and mixing.", "pipette tips", "marker Used for labeling tubes.", "tube rack Holds the PCR tubes." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 25, "tds": 14 } ], "on": "3", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.", "reagents": [ "sterile water (100 µL per tube) Used as diluent in all tubes.", "original sample (100 µL) Starting material for the dilution series." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 45.8, "video_path": "videos640/XM_07.mp4", "video_start": 40.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_07", "eval_id": "monnext_skip_0068", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes labeled 1-4.\",\"pipette Used for liquid handling and mixing.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Holds the PCR tubes.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.\",\"reagents\":[\"sterile water (100 µL per tube) Used as diluent in all tubes.\",\"original sample (100 µL) Starting material for the dilution series.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes labeled 1-4.", "pipette Used for liquid handling and mixing.", "pipette tips", "marker Used for labeling tubes.", "tube rack Holds the PCR tubes." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "3", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a serial dilution series by adding diluent to tubes and performing sequential transfers of sample.", "reagents": [ "sterile water (100 µL per tube) Used as diluent in all tubes.", "original sample (100 µL) Starting material for the dilution series." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 45.8, "video_path": "videos640/XM_07.mp4", "video_start": 40.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_39", "eval_id": "monnext_clean_0069", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"TC hood Biosafety cabinet for sterile work\",\"1.5 mL tube Sterile tube for mixing plasmids\",\"10 cm dish Cell culture dish\",\"pipette Adjustable micropipettes\",\"incubator CO2 incubator for cell culture\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":89,\"tds\":89}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Packaging and Transfection of HEK293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"TC hood Biosafety cabinet for sterile work\",\"1.5 mL tube Sterile tube for mixing plasmids\",\"10 cm dish Cell culture dish\",\"pipette Adjustable micropipettes\",\"incubator CO2 incubator for cell culture\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":89,\"tds\":89}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "TC hood Biosafety cabinet for sterile work", "1.5 mL tube Sterile tube for mixing plasmids", "10 cm dish Cell culture dish", "pipette Adjustable micropipettes", "incubator CO2 incubator for cell culture" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 89, "tds": 89 } ], "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 125.5, "video_path": "videos640/DJI_39.mp4", "video_start": 107.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_39", "eval_id": "monnext_skip_0069", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"TC hood Biosafety cabinet for sterile work\",\"1.5 mL tube Sterile tube for mixing plasmids\",\"10 cm dish Cell culture dish\",\"pipette Adjustable micropipettes\",\"incubator CO2 incubator for cell culture\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Packaging and Transfection of HEK293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"TC hood Biosafety cabinet for sterile work\",\"1.5 mL tube Sterile tube for mixing plasmids\",\"10 cm dish Cell culture dish\",\"pipette Adjustable micropipettes\",\"incubator CO2 incubator for cell culture\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "TC hood Biosafety cabinet for sterile work", "1.5 mL tube Sterile tube for mixing plasmids", "10 cm dish Cell culture dish", "pipette Adjustable micropipettes", "incubator CO2 incubator for cell culture" ], "history": [], "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 125.5, "video_path": "videos640/DJI_39.mp4", "video_start": 107.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_03_05_LT", "eval_id": "monnext_clean_0070", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear" ], "step": "1", "tas": 223, "tds": 223 }, { "notes": [ "Allow flask to cool on the benchtop to approximately 55°C" ], "step": "2", "tas": 226, "tds": 3 } ], "on": "3", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 569.5, "video_path": "videos640/MV_03_05_LT.mp4", "video_start": 551.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_05_LT", "eval_id": "monnext_skip_0070", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear" ], "step": "1", "tas": 223, "tds": 223 } ], "on": "3", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Allow flask to cool on the benchtop to approximately 55°C", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 569.5, "video_path": "videos640/MV_03_05_LT.mp4", "video_start": 551.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_43", "eval_id": "monnext_clean_0071", "history_variant": "clean", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"biosafety cabinet TC hood\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"biosafety cabinet TC hood\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "biosafety cabinet TC hood" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 4, "tds": 4 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 25.0, "video_path": "videos640/DJI_43.mp4", "video_start": 17.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_43", "eval_id": "monnext_skip_0071", "history_variant": "skipped_last_step", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"biosafety cabinet TC hood\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"biosafety cabinet TC hood\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "biosafety cabinet TC hood" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 25.0, "video_path": "videos640/DJI_43.mp4", "video_start": 17.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_56", "eval_id": "monnext_clean_0072", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":83,\"tds\":83}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":83,\"tds\":83}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 83, "tds": 83 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 83, "tds": 83 } ], "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 131.75, "video_path": "videos640/DJI_56.mp4", "video_start": 126.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_56", "eval_id": "monnext_skip_0072", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 83, "tds": 83 } ], "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 131.75, "video_path": "videos640/DJI_56.mp4", "video_start": 126.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_23", "eval_id": "monnext_clean_0073", "history_variant": "clean", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":38,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":38,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 38, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 65.475, "video_path": "videos640/DJI_23.mp4", "video_start": 49.525, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_23", "eval_id": "monnext_skip_0073", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":15,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 15, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 65.475, "video_path": "videos640/DJI_23.mp4", "video_start": 49.525, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_08", "eval_id": "monnext_clean_0074", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 } ], "on": "8", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Add 3ml PBS to dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8" ], "task_type": "monitor_next_step_delta", "video_end": 83.2, "video_path": "videos640/DJI_08.mp4", "video_start": 78.8, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_08", "eval_id": "monnext_skip_0074", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 } ], "on": "8", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 6: Aspirate old medium completely using vacuum aspirator", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Add 3ml PBS to dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8" ], "task_type": "monitor_next_step_delta", "video_end": 83.2, "video_path": "videos640/DJI_08.mp4", "video_start": 78.8, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_19", "eval_id": "monnext_clean_0075", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":35,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":47,\"tds\":11}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":35,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":47,\"tds\":11}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 25, "tds": 9 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 35, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 47, "tds": 11 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 58.075, "video_path": "videos640/XM_19.mp4", "video_start": 50.925, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_19", "eval_id": "monnext_skip_0075", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":35,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":15,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":25,\"tds\":9},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":35,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 15, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 25, "tds": 9 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 35, "tds": 9 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 58.075, "video_path": "videos640/XM_19.mp4", "video_start": 50.925, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_40", "eval_id": "monnext_clean_0076", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":34,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":34,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 14, "tds": 13 }, { "notes": [ "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection)." ], "step": "4", "tas": 34, "tds": 16 } ], "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 }, { "note": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/XM_40.mp4", "video_start": 37.3, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_40", "eval_id": "monnext_skip_0076", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 14, "tds": 13 } ], "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 }, { "note": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/XM_40.mp4", "video_start": 37.3, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_43", "eval_id": "monnext_clean_0077", "history_variant": "clean", "operation": "PSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32},{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":98,\"tds\":38},{\"notes\":[\"Gently rock the plate to evenly distribute the virus.\"],\"step\":\"5\",\"tas\":106,\"tds\":6}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of iPSC-fibroblasts", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32},{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":98,\"tds\":38},{\"notes\":[\"Gently rock the plate to evenly distribute the virus.\"],\"step\":\"5\",\"tas\":106,\"tds\":6}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Incubator Used for pre-seeding and post-infection culture", "96-well plate Pre-seeded with iPSC-fibroblasts", "Multichannel pipette Used for medium replacement and buffer addition", "Single channel pipette Used for adding virus to specific wells", "Marker Used for recording infection details on the plate", "Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step" ], "history": [ { "notes": [ "Retrieve pre-seeded iPSC-fibroblast plates from the incubator." ], "step": "2", "tas": 8, "tds": 7 }, { "notes": [ "(Optional) Replace culture medium with fresh infection medium as needed." ], "step": "3", "tas": 45, "tds": 32 }, { "notes": [ "Add 20 µL of the appropriate virus to each well." ], "step": "4", "tas": 98, "tds": 38 }, { "notes": [ "Gently rock the plate to evenly distribute the virus." ], "step": "5", "tas": 106, "tds": 6 } ], "on": "6", "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus", "Control lentivirus (20 µL per well)", "Infection medium Fresh culture medium used for infection" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Record the infection start time and group assignments on the plate.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 120.85, "video_path": "videos640/XM_43.mp4", "video_start": 113.15, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_43", "eval_id": "monnext_skip_0077", "history_variant": "skipped_last_step", "operation": "PSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32},{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":98,\"tds\":38}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of iPSC-fibroblasts", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[{\"notes\":[\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\"],\"step\":\"2\",\"tas\":8,\"tds\":7},{\"notes\":[\"(Optional) Replace culture medium with fresh infection medium as needed.\"],\"step\":\"3\",\"tas\":45,\"tds\":32},{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":98,\"tds\":38}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Incubator Used for pre-seeding and post-infection culture", "96-well plate Pre-seeded with iPSC-fibroblasts", "Multichannel pipette Used for medium replacement and buffer addition", "Single channel pipette Used for adding virus to specific wells", "Marker Used for recording infection details on the plate", "Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step" ], "history": [ { "notes": [ "Retrieve pre-seeded iPSC-fibroblast plates from the incubator." ], "step": "2", "tas": 8, "tds": 7 }, { "notes": [ "(Optional) Replace culture medium with fresh infection medium as needed." ], "step": "3", "tas": 45, "tds": 32 }, { "notes": [ "Add 20 µL of the appropriate virus to each well." ], "step": "4", "tas": 98, "tds": 38 } ], "on": "6", "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus", "Control lentivirus (20 µL per well)", "Infection medium Fresh culture medium used for infection" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Gently rock the plate to evenly distribute the virus.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Record the infection start time and group assignments on the plate.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 120.85, "video_path": "videos640/XM_43.mp4", "video_start": 113.15, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_clean_0078", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 } ], "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 }, { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 50.0, "video_path": "videos640/DJI_17.mp4", "video_start": 45.5, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_17", "eval_id": "monnext_skip_0078", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 } ], "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Mix gently by flicking the tube 4-5 times.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 }, { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 50.0, "video_path": "videos640/DJI_17.mp4", "video_start": 45.5, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_18", "eval_id": "monnext_clean_0079", "history_variant": "clean", "operation": "Transformation (correct) replicate 1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for transferring DNA and culture.", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 32, "tds": 4 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 38, "tds": 6 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 }, { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 53.6, "video_path": "videos640/DJI_18.mp4", "video_start": 46.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_18", "eval_id": "monnext_skip_0079", "history_variant": "skipped_last_step", "operation": "Transformation (correct) replicate 1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for transferring DNA and culture.", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 32, "tds": 4 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Incubate the DNA-cell mixture on ice for 5 seconds.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 }, { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 53.6, "video_path": "videos640/DJI_18.mp4", "video_start": 46.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_clean_0080", "history_variant": "clean", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 }, { "notes": [ "Mix well." ], "step": "4", "tas": 70, "tds": 17 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 77.75, "video_path": "videos640/DJI_10.mp4", "video_start": 72.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_10", "eval_id": "monnext_skip_0080", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Mix well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 77.75, "video_path": "videos640/DJI_10.mp4", "video_start": 72.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_16", "eval_id": "monnext_clean_0081", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.", "pipette Adjustable volume micropipette.", "ice bucket Green ice bucket used for thawing samples.", "microtube Sterile microcentrifuge tube for mixing." ], "history": [ { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 } ], "on": "2.2", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA samples (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer.", "Invitrogen E-gel cassette Pre-cast agarose gel cassette." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "2 µL 6× E-gel loading buffer", "t": 0.0 }, { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2.2", "target_visible_step_ids": [ "2.2", "4" ], "task_type": "monitor_next_step_delta", "video_end": 29.0, "video_path": "videos640/XM_16.mp4", "video_start": 21.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_16", "eval_id": "monnext_skip_0081", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.", "pipette Adjustable volume micropipette.", "ice bucket Green ice bucket used for thawing samples.", "microtube Sterile microcentrifuge tube for mixing." ], "history": [], "on": "2.2", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA samples (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer.", "Invitrogen E-gel cassette Pre-cast agarose gel cassette." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2.1: 10 µL DNA sample", "error_type": "step_skipped", "step_ref": "2.1", "t": 0.0 } ], "new_notes": [ { "note": "2 µL 6× E-gel loading buffer", "t": 0.0 }, { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.1 was completed before continuing." }, "target_error_step_id": "2.1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2.2", "target_visible_step_ids": [ "2.2", "4" ], "task_type": "monitor_next_step_delta", "video_end": 29.0, "video_path": "videos640/XM_16.mp4", "video_start": 21.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_22", "eval_id": "monnext_clean_0082", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 29.75, "video_path": "videos640/XM_22.mp4", "video_start": 24.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_22", "eval_id": "monnext_skip_0082", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 29.75, "video_path": "videos640/XM_22.mp4", "video_start": 24.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_31", "eval_id": "monnext_clean_0083", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":23,\"tds\":4},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":44,\"tds\":20},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":49,\"tds\":4}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":23,\"tds\":4},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":44,\"tds\":20},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":49,\"tds\":4}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 6, "tds": 6 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 12, "tds": 5 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 18, "tds": 5 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 23, "tds": 4 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 44, "tds": 20 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 49, "tds": 4 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8" ], "task_type": "monitor_next_step_delta", "video_end": 53.875, "video_path": "videos640/DJI_31.mp4", "video_start": 51.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_31", "eval_id": "monnext_skip_0083", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":23,\"tds\":4},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":44,\"tds\":20}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":23,\"tds\":4},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":44,\"tds\":20}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 6, "tds": 6 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 12, "tds": 5 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 18, "tds": 5 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 23, "tds": 4 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 44, "tds": 20 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 7: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8" ], "task_type": "monitor_next_step_delta", "video_end": 53.875, "video_path": "videos640/DJI_31.mp4", "video_start": 51.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_59", "eval_id": "monnext_clean_0084", "history_variant": "clean", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":14}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":14}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 18, "tds": 14 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 91.25, "video_path": "videos640/DJI_59.mp4", "video_start": 85.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_59", "eval_id": "monnext_skip_0084", "history_variant": "skipped_last_step", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 91.25, "video_path": "videos640/DJI_59.mp4", "video_start": 85.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_33", "eval_id": "monnext_clean_0085", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":35,\"tds\":29}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":35,\"tds\":29}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen E-Gel iBase Power System", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 35, "tds": 29 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 42.15, "video_path": "videos640/DJI_33.mp4", "video_start": 37.2, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_33", "eval_id": "monnext_skip_0085", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":6,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":6,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen E-Gel iBase Power System", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 6, "tds": 6 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 2.1: 10 µL DNA sample", "error_type": "step_skipped", "step_ref": "2.1", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.1 was completed before continuing." }, "target_error_step_id": "2.1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 42.15, "video_path": "videos640/DJI_33.mp4", "video_start": 37.2, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_35", "eval_id": "monnext_clean_0086", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":20,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":36,\"tds\":16}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":20,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":36,\"tds\":16}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base The device used to run the gel", "Pipette", "Microtube" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 20, "tds": 15 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 36, "tds": 16 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer before loading", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Includes loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 42.25, "video_path": "videos640/DJI_35.mp4", "video_start": 38.2, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_35", "eval_id": "monnext_skip_0086", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":20,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":20,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base The device used to run the gel", "Pipette", "Microtube" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 20, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer before loading", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Includes loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Load 10–20 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 42.25, "video_path": "videos640/DJI_35.mp4", "video_start": 38.2, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_20", "eval_id": "monnext_clean_0087", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":18,\"tds\":18}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":18,\"tds\":18}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 18, "tds": 18 } ], "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Mix gently by flicking the tube 4-5 times.", "t": 0.0 }, { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 21.7, "video_path": "videos640/DJI_20.mp4", "video_start": 18.5, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_20", "eval_id": "monnext_skip_0087", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [], "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Add 5 μL of plasmid DNA to the competent E. coli cells.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Mix gently by flicking the tube 4-5 times.", "t": 0.0 }, { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 21.7, "video_path": "videos640/DJI_20.mp4", "video_start": 18.5, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_08", "eval_id": "monnext_clean_0088", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 }, { "notes": [ "Add 3ml PBS to dish" ], "step": "8", "tas": 85, "tds": 8 }, { "notes": [ "Gently rock dish to wash cell surface" ], "step": "9", "tas": 89, "tds": 2 } ], "on": "10", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "10", "target_delta": { "current_step": "10", "errors": [], "new_notes": [ { "note": "Aspirate PBS completely", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "10", "target_visible_step_ids": [ "10" ], "task_type": "monitor_next_step_delta", "video_end": 93.1, "video_path": "videos640/DJI_08.mp4", "video_start": 90.9, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_08", "eval_id": "monnext_skip_0088", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 }, { "notes": [ "Add 3ml PBS to dish" ], "step": "8", "tas": 85, "tds": 8 } ], "on": "10", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "10", "target_delta": { "current_step": "10", "errors": [ { "description": "The state is missing previously completed step 9: Gently rock dish to wash cell surface", "error_type": "step_skipped", "step_ref": "9", "t": 0.0 } ], "new_notes": [ { "note": "Aspirate PBS completely", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 9 was completed before continuing." }, "target_error_step_id": "9", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "10", "target_visible_step_ids": [ "10" ], "task_type": "monitor_next_step_delta", "video_end": 93.1, "video_path": "videos640/DJI_08.mp4", "video_start": 90.9, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_01_11_HD", "eval_id": "monnext_clean_0089", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0},{\"notes\":[\"Attach 5mL pipet tip to pipette man\"],\"step\":\"2\",\"tas\":6,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0},{\"notes\":[\"Attach 5mL pipet tip to pipette man\"],\"step\":\"2\",\"tas\":6,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Attach pipet to pipetterman without touching the glass" ], "step": "1", "tas": 0, "tds": 0 }, { "notes": [ "Attach 5mL pipet tip to pipette man" ], "step": "2", "tas": 6, "tds": 6 } ], "on": "3", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Move pipet tip and fluid waste disposals to easily reachable location", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 10.65, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 7.35, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_11_HD", "eval_id": "monnext_skip_0089", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Attach pipet to pipetterman without touching the glass" ], "step": "1", "tas": 0, "tds": 0 } ], "on": "3", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Attach 5mL pipet tip to pipette man", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Move pipet tip and fluid waste disposals to easily reachable location", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 10.65, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 7.35, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_32", "eval_id": "monnext_clean_0090", "history_variant": "clean", "operation": "Lenti_Infection_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Adjustable volume pipette Used for adding polybrene and virus suspension.\",\"6cm culture dish Contains the target cells for infection.\",\"Incubator Set to 37°C, 5% CO2 for overnight incubation.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"2\",\"tas\":28,\"tds\":10},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\"],\"step\":\"3\",\"tas\":65,\"tds\":23}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"Polybrene Added to culture medium to enhance viral infection.\",\"Lentivirus suspension Added at the desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentivirus Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Adjustable volume pipette Used for adding polybrene and virus suspension.\",\"6cm culture dish Contains the target cells for infection.\",\"Incubator Set to 37°C, 5% CO2 for overnight incubation.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"2\",\"tas\":28,\"tds\":10},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\"],\"step\":\"3\",\"tas\":65,\"tds\":23}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"Polybrene Added to culture medium to enhance viral infection.\",\"Lentivirus suspension Added at the desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Adjustable volume pipette Used for adding polybrene and virus suspension.", "6cm culture dish Contains the target cells for infection.", "Incubator Set to 37°C, 5% CO2 for overnight incubation." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "2", "tas": 28, "tds": 10 }, { "notes": [ "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution." ], "step": "3", "tas": 65, "tds": 23 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 2, "step": "2" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.", "order": 3, "step": "3" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "Polybrene Added to culture medium to enhance viral infection.", "Lentivirus suspension Added at the desired MOI." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 74.525, "video_path": "videos640/XM_32.mp4", "video_start": 68.475, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_32", "eval_id": "monnext_skip_0090", "history_variant": "skipped_last_step", "operation": "Lenti_Infection_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Adjustable volume pipette Used for adding polybrene and virus suspension.\",\"6cm culture dish Contains the target cells for infection.\",\"Incubator Set to 37°C, 5% CO2 for overnight incubation.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"2\",\"tas\":28,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"Polybrene Added to culture medium to enhance viral infection.\",\"Lentivirus suspension Added at the desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentivirus Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Adjustable volume pipette Used for adding polybrene and virus suspension.\",\"6cm culture dish Contains the target cells for infection.\",\"Incubator Set to 37°C, 5% CO2 for overnight incubation.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"2\",\"tas\":28,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"Polybrene Added to culture medium to enhance viral infection.\",\"Lentivirus suspension Added at the desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Adjustable volume pipette Used for adding polybrene and virus suspension.", "6cm culture dish Contains the target cells for infection.", "Incubator Set to 37°C, 5% CO2 for overnight incubation." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "2", "tas": 28, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 2, "step": "2" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.", "order": 3, "step": "3" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "Polybrene Added to culture medium to enhance viral infection.", "Lentivirus suspension Added at the desired MOI." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 74.525, "video_path": "videos640/XM_32.mp4", "video_start": 68.475, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_10", "eval_id": "monnext_clean_0091", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":12,\"tds\":11}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":12,\"tds\":11}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 12, "tds": 11 } ], "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [], "new_notes": [ { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "1" ], "task_type": "monitor_next_step_delta", "video_end": 27.6, "video_path": "videos640/XM_10.mp4", "video_start": 20.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_10", "eval_id": "monnext_skip_0091", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [], "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [ { "description": "The state is missing previously completed step 2: Load 10 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "1" ], "task_type": "monitor_next_step_delta", "video_end": 27.6, "video_path": "videos640/XM_10.mp4", "video_start": 20.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_36_HD", "eval_id": "monnext_clean_0092", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve spin column from centrifuge to rack\"],\"step\":\"2\",\"tas\":22,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve spin column from centrifuge to rack\"],\"step\":\"2\",\"tas\":22,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve spin column from centrifuge to rack" ], "step": "2", "tas": 22, "tds": 6 } ], "on": "3", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Discard flowthrough to appropriate waste container", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 39.05, "video_path": "videos640/MV_02_36_HD.mp4", "video_start": 26.95, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_02_36_HD", "eval_id": "monnext_skip_0092", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "3", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Retrieve spin column from centrifuge to rack", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Discard flowthrough to appropriate waste container", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 39.05, "video_path": "videos640/MV_02_36_HD.mp4", "video_start": 26.95, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_41", "eval_id": "monnext_clean_0093", "history_variant": "clean", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":15,\"tds\":15}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtering", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":15,\"tds\":15}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "TC hood Biosafety cabinet" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 15, "tds": 15 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/DJI_41.mp4", "video_start": 36.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_41", "eval_id": "monnext_skip_0093", "history_variant": "skipped_last_step", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtering", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "TC hood Biosafety cabinet" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/DJI_41.mp4", "video_start": 36.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_31", "eval_id": "monnext_clean_0094", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 6, "tds": 6 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 12, "tds": 5 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 20.8, "video_path": "videos640/DJI_31.mp4", "video_start": 16.75, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_31", "eval_id": "monnext_skip_0094", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 6, "tds": 6 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 20.8, "video_path": "videos640/DJI_31.mp4", "video_start": 16.75, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_08", "eval_id": "monnext_clean_0095", "history_variant": "clean", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":27,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":27,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 27, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 52.0, "video_path": "videos640/XM_08.mp4", "video_start": 44.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_08", "eval_id": "monnext_skip_0095", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 5 } ], "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 2: Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 52.0, "video_path": "videos640/XM_08.mp4", "video_start": 44.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_clean_0096", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 44, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 54, "tds": 9 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 73.7, "video_path": "videos640/DJI_30.mp4", "video_start": 67.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_skip_0096", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 44, "tds": 10 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 6: Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 73.7, "video_path": "videos640/DJI_30.mp4", "video_start": 67.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_clean_0097", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 38.0, "video_path": "videos640/DJI_30.mp4", "video_start": 30.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_skip_0097", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 38.0, "video_path": "videos640/DJI_30.mp4", "video_start": 30.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_25_RT", "eval_id": "monnext_clean_0098", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load sample into microcentrifuge\"],\"step\":\"1\",\"tas\":8,\"tds\":8}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load sample into microcentrifuge\"],\"step\":\"1\",\"tas\":8,\"tds\":8}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Load sample into microcentrifuge" ], "step": "1", "tas": 8, "tds": 8 } ], "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 11.875, "video_path": "videos640/MV_02_25_RT.mp4", "video_start": 9.125, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_02_25_RT", "eval_id": "monnext_skip_0098", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Load sample into microcentrifuge", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 11.875, "video_path": "videos640/MV_02_25_RT.mp4", "video_start": 9.125, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_66", "eval_id": "monnext_clean_0099", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette used for adding polybrene and virus.\",\"Pipette tips Sterile tips in boxes.\",\"10 cm dish Cell culture dish containing target cells.\",\"Ice bucket Pink bucket containing ice for thawing virus.\",\"CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":13,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.\",\"reagents\":[\"Polybrene Final concentration in culture medium.\",\"Lentivirus suspension Aliquot of lentivirus.\",\"Culture medium Medium in which target cells are seeded.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette used for adding polybrene and virus.\",\"Pipette tips Sterile tips in boxes.\",\"10 cm dish Cell culture dish containing target cells.\",\"Ice bucket Pink bucket containing ice for thawing virus.\",\"CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":13,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.\",\"reagents\":[\"Polybrene Final concentration in culture medium.\",\"Lentivirus suspension Aliquot of lentivirus.\",\"Culture medium Medium in which target cells are seeded.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette used for adding polybrene and virus.", "Pipette tips Sterile tips in boxes.", "10 cm dish Cell culture dish containing target cells.", "Ice bucket Pink bucket containing ice for thawing virus.", "CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 13, "tds": 12 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.", "reagents": [ "Polybrene Final concentration in culture medium.", "Lentivirus suspension Aliquot of lentivirus.", "Culture medium Medium in which target cells are seeded." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 28.075, "video_path": "videos640/DJI_66.mp4", "video_start": 20.925, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_66", "eval_id": "monnext_skip_0099", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette used for adding polybrene and virus.\",\"Pipette tips Sterile tips in boxes.\",\"10 cm dish Cell culture dish containing target cells.\",\"Ice bucket Pink bucket containing ice for thawing virus.\",\"CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2.\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.\",\"reagents\":[\"Polybrene Final concentration in culture medium.\",\"Lentivirus suspension Aliquot of lentivirus.\",\"Culture medium Medium in which target cells are seeded.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette used for adding polybrene and virus.\",\"Pipette tips Sterile tips in boxes.\",\"10 cm dish Cell culture dish containing target cells.\",\"Ice bucket Pink bucket containing ice for thawing virus.\",\"CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2.\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.\",\"reagents\":[\"Polybrene Final concentration in culture medium.\",\"Lentivirus suspension Aliquot of lentivirus.\",\"Culture medium Medium in which target cells are seeded.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette used for adding polybrene and virus.", "Pipette tips Sterile tips in boxes.", "10 cm dish Cell culture dish containing target cells.", "Ice bucket Pink bucket containing ice for thawing virus.", "CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2." ], "history": [], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.", "reagents": [ "Polybrene Final concentration in culture medium.", "Lentivirus suspension Aliquot of lentivirus.", "Culture medium Medium in which target cells are seeded." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 28.075, "video_path": "videos640/DJI_66.mp4", "video_start": 20.925, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_23", "eval_id": "monnext_clean_0100", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 33.4, "video_path": "videos640/XM_23.mp4", "video_start": 24.6, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_23", "eval_id": "monnext_skip_0100", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 33.4, "video_path": "videos640/XM_23.mp4", "video_start": 24.6, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_clean_0101", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 55, "tds": 9 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 59.1, "video_path": "videos640/DJI_17.mp4", "video_start": 56.9, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_skip_0101", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 59.1, "video_path": "videos640/DJI_17.mp4", "video_start": 56.9, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_52", "eval_id": "monnext_clean_0102", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSC-Fibroblast", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Micropipette Used for adding virus to wells.\",\"Pipette tips\",\"96-well plate Contains the iPSC-fibroblasts.\",\"Marker Used for labeling the plate.\",\"Incubator Used for culturing the cells post-infection.\",\"Biosafety cabinet TC hood where the procedure is performed.\"],\"history\":[{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":60,\"tds\":39}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate and in your log.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblasts with purified lentivirus, including virus addition, plate labeling, and incubation.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 or control lentivirus (20 µL per well) Thawed on ice before use.\",\"iPSC-fibroblasts Pre-seeded in a 96-well plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of iPSC-Fibroblasts", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Micropipette Used for adding virus to wells.\",\"Pipette tips\",\"96-well plate Contains the iPSC-fibroblasts.\",\"Marker Used for labeling the plate.\",\"Incubator Used for culturing the cells post-infection.\",\"Biosafety cabinet TC hood where the procedure is performed.\"],\"history\":[{\"notes\":[\"Add 20 µL of the appropriate virus to each well.\"],\"step\":\"4\",\"tas\":60,\"tds\":39}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate and in your log.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblasts with purified lentivirus, including virus addition, plate labeling, and incubation.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 or control lentivirus (20 µL per well) Thawed on ice before use.\",\"iPSC-fibroblasts Pre-seeded in a 96-well plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Micropipette Used for adding virus to wells.", "Pipette tips", "96-well plate Contains the iPSC-fibroblasts.", "Marker Used for labeling the plate.", "Incubator Used for culturing the cells post-infection.", "Biosafety cabinet TC hood where the procedure is performed." ], "history": [ { "notes": [ "Add 20 µL of the appropriate virus to each well." ], "step": "4", "tas": 60, "tds": 39 } ], "on": "6", "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate and in your log.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblasts with purified lentivirus, including virus addition, plate labeling, and incubation.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 or control lentivirus (20 µL per well) Thawed on ice before use.", "iPSC-fibroblasts Pre-seeded in a 96-well plate." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Record the infection start time and group assignments on the plate and in your log.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 79.95, "video_path": "videos640/DJI_52.mp4", "video_start": 70.05, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_52", "eval_id": "monnext_skip_0102", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSC-Fibroblast", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Micropipette Used for adding virus to wells.\",\"Pipette tips\",\"96-well plate Contains the iPSC-fibroblasts.\",\"Marker Used for labeling the plate.\",\"Incubator Used for culturing the cells post-infection.\",\"Biosafety cabinet TC hood where the procedure is performed.\"],\"history\":[],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate and in your log.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblasts with purified lentivirus, including virus addition, plate labeling, and incubation.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 or control lentivirus (20 µL per well) Thawed on ice before use.\",\"iPSC-fibroblasts Pre-seeded in a 96-well plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of iPSC-Fibroblasts", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Micropipette Used for adding virus to wells.\",\"Pipette tips\",\"96-well plate Contains the iPSC-fibroblasts.\",\"Marker Used for labeling the plate.\",\"Incubator Used for culturing the cells post-infection.\",\"Biosafety cabinet TC hood where the procedure is performed.\"],\"history\":[],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate and in your log.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblasts with purified lentivirus, including virus addition, plate labeling, and incubation.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 or control lentivirus (20 µL per well) Thawed on ice before use.\",\"iPSC-fibroblasts Pre-seeded in a 96-well plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Micropipette Used for adding virus to wells.", "Pipette tips", "96-well plate Contains the iPSC-fibroblasts.", "Marker Used for labeling the plate.", "Incubator Used for culturing the cells post-infection.", "Biosafety cabinet TC hood where the procedure is performed." ], "history": [], "on": "6", "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate and in your log.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblasts with purified lentivirus, including virus addition, plate labeling, and incubation.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 or control lentivirus (20 µL per well) Thawed on ice before use.", "iPSC-fibroblasts Pre-seeded in a 96-well plate." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Add 20 µL of the appropriate virus to each well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Record the infection start time and group assignments on the plate and in your log.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 79.95, "video_path": "videos640/DJI_52.mp4", "video_start": 70.05, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_54", "eval_id": "monnext_clean_0103", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":43,\"tds\":12},{\"notes\":[\"Incubate the mixture at room temperature for 15 minutes.\"],\"step\":\"4\",\"tas\":79,\"tds\":13}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":43,\"tds\":12},{\"notes\":[\"Incubate the mixture at room temperature for 15 minutes.\"],\"step\":\"4\",\"tas\":79,\"tds\":13}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 30, "tds": 25 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 43, "tds": 12 }, { "notes": [ "Incubate the mixture at room temperature for 15 minutes." ], "step": "4", "tas": 79, "tds": 13 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 145.275, "video_path": "videos640/DJI_54.mp4", "video_start": 133.725, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_54", "eval_id": "monnext_skip_0103", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":43,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":30,\"tds\":25},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":43,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 30, "tds": 25 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 43, "tds": 12 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Incubate the mixture at room temperature for 15 minutes.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 145.275, "video_path": "videos640/DJI_54.mp4", "video_start": 133.725, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_25", "eval_id": "monnext_clean_0104", "history_variant": "clean", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":3,\"tds\":3},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":17,\"tds\":13},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":29,\"tds\":0}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":3,\"tds\":3},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":17,\"tds\":13},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":29,\"tds\":0}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC hood Tissue culture laminar flow hood.", "serological pipette Used for adding fresh medium.", "micropipette Used for adding cytokines.", "cell culture plate 6-well plate used for cell culture.", "inverted microscope EVOS imaging system." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 3, "tds": 3 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 17, "tds": 13 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 29, "tds": 0 } ], "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "fresh medium Pink liquid added to the culture plate.", "cytokine Added to the medium in the culture plate." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "t": 0.0 }, { "note": "Add cytokine(s) to the medium at the desired working concentration.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 49.0, "video_path": "videos640/DJI_25.mp4", "video_start": 41.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_25", "eval_id": "monnext_skip_0104", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":3,\"tds\":3},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":17,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":3,\"tds\":3},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":17,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC hood Tissue culture laminar flow hood.", "serological pipette Used for adding fresh medium.", "micropipette Used for adding cytokines.", "cell culture plate 6-well plate used for cell culture.", "inverted microscope EVOS imaging system." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 3, "tds": 3 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 17, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "fresh medium Pink liquid added to the culture plate.", "cytokine Added to the medium in the culture plate." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "t": 0.0 }, { "note": "Add cytokine(s) to the medium at the desired working concentration.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 49.0, "video_path": "videos640/DJI_25.mp4", "video_start": 41.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_13", "eval_id": "monnext_clean_0105", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":3,\"tds\":3},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":8,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":3,\"tds\":3},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":8,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar power base.", "pipette", "pipette tips", "microtube Sterile microtube for mixing." ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 3, "tds": 3 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 8, "tds": 5 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA samples (10 µL) Thaw on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "3" ], "task_type": "monitor_next_step_delta", "video_end": 26.35, "video_path": "videos640/XM_13.mp4", "video_start": 21.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_13", "eval_id": "monnext_skip_0105", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":3,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":3,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar power base.", "pipette", "pipette tips", "microtube Sterile microtube for mixing." ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 3, "tds": 3 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA samples (10 µL) Thaw on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2.1: 10 µL DNA sample", "error_type": "step_skipped", "step_ref": "2.1", "t": 0.0 } ], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.1 was completed before continuing." }, "target_error_step_id": "2.1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "3" ], "task_type": "monitor_next_step_delta", "video_end": 26.35, "video_path": "videos640/XM_13.mp4", "video_start": 21.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_03", "eval_id": "monnext_clean_0106", "history_variant": "clean", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 17, "tds": 16 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 30, "tds": 12 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 }, { "note": "Mix well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 46.0, "video_path": "videos640/DJI_03.mp4", "video_start": 38.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_03", "eval_id": "monnext_skip_0106", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 17, "tds": 16 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add reagent 2 into the EP tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 }, { "note": "Mix well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 46.0, "video_path": "videos640/DJI_03.mp4", "video_start": 38.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_36", "eval_id": "monnext_clean_0107", "history_variant": "clean", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"pipette\",\"1.5 mL microcentrifuge tubes\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":18}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"pipette\",\"1.5 mL microcentrifuge tubes\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":18}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "pipette", "1.5 mL microcentrifuge tubes" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 18, "tds": 18 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 63.0, "video_path": "videos640/XM_36.mp4", "video_start": 55.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_36", "eval_id": "monnext_skip_0107", "history_variant": "skipped_last_step", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"pipette\",\"1.5 mL microcentrifuge tubes\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"pipette\",\"1.5 mL microcentrifuge tubes\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "pipette", "1.5 mL microcentrifuge tubes" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 }, { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 63.0, "video_path": "videos640/XM_36.mp4", "video_start": 55.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_15_RF", "eval_id": "monnext_clean_0108", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12},{\"notes\":[\"Collect 1st 750uL of trypsin\"],\"step\":\"2\",\"tas\":23,\"tds\":11}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12},{\"notes\":[\"Collect 1st 750uL of trypsin\"],\"step\":\"2\",\"tas\":23,\"tds\":11}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip" ], "step": "1", "tas": 12, "tds": 12 }, { "notes": [ "Collect 1st 750uL of trypsin" ], "step": "2", "tas": 23, "tds": 11 } ], "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 26.1, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 23.9, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_15_RF", "eval_id": "monnext_skip_0108", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip" ], "step": "1", "tas": 12, "tds": 12 } ], "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Collect 1st 750uL of trypsin", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 26.1, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 23.9, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_05", "eval_id": "monnext_clean_0109", "history_variant": "clean", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes required.", "pipette Adjustable volume pipette capable of measuring 100 µL.", "pipette tips", "marker Used for labeling tubes.", "tube rack Green PCR tube rack." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 30, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.", "reagents": [ "sterile water (400 µL) Used as the diluent; 100 µL per tube.", "original sample (100 µL) Labeled as 'S'." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/XM_05.mp4", "video_start": 36.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_05", "eval_id": "monnext_skip_0109", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes required.\",\"pipette Adjustable volume pipette capable of measuring 100 µL.\",\"pipette tips\",\"marker Used for labeling tubes.\",\"tube rack Green PCR tube rack.\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.\",\"reagents\":[\"sterile water (400 µL) Used as the diluent; 100 µL per tube.\",\"original sample (100 µL) Labeled as 'S'.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes required.", "pipette Adjustable volume pipette capable of measuring 100 µL.", "pipette tips", "marker Used for labeling tubes.", "tube rack Green PCR tube rack." ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 6 } ], "on": "3", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and performing sequential transfers of a sample with thorough mixing at each step.", "reagents": [ "sterile water (400 µL) Used as the diluent; 100 µL per tube.", "original sample (100 µL) Labeled as 'S'." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 44.0, "video_path": "videos640/XM_05.mp4", "video_start": 36.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_06_RT", "eval_id": "monnext_clean_0110", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140},{\"notes\":[\"Pour the liquid agarose slowly into the casting tray\"],\"step\":\"3\",\"tas\":219,\"tds\":22}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140},{\"notes\":[\"Pour the liquid agarose slowly into the casting tray\"],\"step\":\"3\",\"tas\":219,\"tds\":22}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve the 5 0.5mL centrifuge tubes" ], "step": "1", "tas": 48, "tds": 48 }, { "notes": [ "Label centrifuge tubes" ], "step": "2", "tas": 188, "tds": 140 }, { "notes": [ "Pour the liquid agarose slowly into the casting tray" ], "step": "3", "tas": 219, "tds": 22 } ], "on": "4", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 493.5, "video_path": "videos640/MV_03_06_RT.mp4", "video_start": 475.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_06_RT", "eval_id": "monnext_skip_0110", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve the 5 0.5mL centrifuge tubes" ], "step": "1", "tas": 48, "tds": 48 }, { "notes": [ "Label centrifuge tubes" ], "step": "2", "tas": 188, "tds": 140 } ], "on": "4", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Pour the liquid agarose slowly into the casting tray", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 493.5, "video_path": "videos640/MV_03_06_RT.mp4", "video_start": 475.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_12", "eval_id": "monnext_clean_0111", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":10,\"tds\":6}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":10,\"tds\":6}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [ { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "1", "tas": 10, "tds": 6 } ], "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Load 10 µL of the prepared DNA sample into a well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 21.075, "video_path": "videos640/XM_12.mp4", "video_start": 13.925, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_12", "eval_id": "monnext_skip_0111", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [], "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Place the Invitrogen E-gel cassette into the E-gel power base.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Load 10 µL of the prepared DNA sample into a well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 21.075, "video_path": "videos640/XM_12.mp4", "video_start": 13.925, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_51", "eval_id": "monnext_clean_0112", "history_variant": "clean", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 Reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "notes": [ "16 μL sterile H₂O" ], "step": "2.1", "tas": 14, "tds": 7 }, { "notes": [ "2 μL Forward Primer (from 100 μM stock)" ], "step": "2.2", "tas": 22, "tds": 7 } ], "on": "3.1", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3.2", "target_delta": { "current_step": "3.2", "errors": [], "new_notes": [ { "note": "24 μL sterile H₂O", "t": 0.0 }, { "note": "6 μL of the primer mix (prepared above)", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3.1", "target_visible_step_ids": [ "3.1", "3.2" ], "task_type": "monitor_next_step_delta", "video_end": 54.15, "video_path": "videos640/DJI_51.mp4", "video_start": 47.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_51", "eval_id": "monnext_skip_0112", "history_variant": "skipped_last_step", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 Reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "notes": [ "16 μL sterile H₂O" ], "step": "2.1", "tas": 14, "tds": 7 } ], "on": "3.1", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3.2", "target_delta": { "current_step": "3.2", "errors": [ { "description": "The state is missing previously completed step 2.2: 2 μL Forward Primer (from 100 μM stock)", "error_type": "step_skipped", "step_ref": "2.2", "t": 0.0 } ], "new_notes": [ { "note": "24 μL sterile H₂O", "t": 0.0 }, { "note": "6 μL of the primer mix (prepared above)", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.2 was completed before continuing." }, "target_error_step_id": "2.2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3.1", "target_visible_step_ids": [ "3.1", "3.2" ], "task_type": "monitor_next_step_delta", "video_end": 54.15, "video_path": "videos640/DJI_51.mp4", "video_start": 47.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_clean_0113", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 52.0, "video_path": "videos640/XM_23.mp4", "video_start": 44.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_skip_0113", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 52.0, "video_path": "videos640/XM_23.mp4", "video_start": 44.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_03", "eval_id": "monnext_clean_0114", "history_variant": "clean", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "adjustable volume pipette", "pipette tips", "0.2 mL PCR tubes", "tube rack", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 } ], "on": "2", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.", "reagents": [ "Master Mix In the tube labeled M", "Forward Primer In the tube labeled F", "Reverse Primer In the tube labeled R", "Template DNA In the tube labeled T" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add Forward Primer (in the tube labeled F).", "t": 0.0 }, { "note": "Add Reverse Primer (in the tube labeled R).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 25.6, "video_path": "videos640/XM_03.mp4", "video_start": 18.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_03", "eval_id": "monnext_skip_0114", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "adjustable volume pipette", "pipette tips", "0.2 mL PCR tubes", "tube rack", "microcentrifuge", "thermocycler" ], "history": [], "on": "2", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.", "reagents": [ "Master Mix In the tube labeled M", "Forward Primer In the tube labeled F", "Reverse Primer In the tube labeled R", "Template DNA In the tube labeled T" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add Forward Primer (in the tube labeled F).", "t": 0.0 }, { "note": "Add Reverse Primer (in the tube labeled R).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 25.6, "video_path": "videos640/XM_03.mp4", "video_start": 18.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_20", "eval_id": "monnext_clean_0115", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 32.75, "video_path": "videos640/XM_20.mp4", "video_start": 27.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_20", "eval_id": "monnext_skip_0115", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 32.75, "video_path": "videos640/XM_20.mp4", "video_start": 27.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_35", "eval_id": "monnext_clean_0116", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":105,\"tds\":19},{\"notes\":[\"Add the transfection mix dropwise to the HEK293T cells.\"],\"step\":\"5\",\"tas\":126,\"tds\":21}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":105,\"tds\":19},{\"notes\":[\"Add the transfection mix dropwise to the HEK293T cells.\"],\"step\":\"5\",\"tas\":126,\"tds\":21}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 84, "tds": 19 }, { "notes": [ "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish." ], "step": "1", "tas": 105, "tds": 19 }, { "notes": [ "Add the transfection mix dropwise to the HEK293T cells." ], "step": "5", "tas": 126, "tds": 21 } ], "on": "7", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 151.725, "video_path": "videos640/XM_35.mp4", "video_start": 141.275, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_35", "eval_id": "monnext_skip_0116", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":105,\"tds\":19}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":105,\"tds\":19}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 84, "tds": 19 }, { "notes": [ "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish." ], "step": "1", "tas": 105, "tds": 19 } ], "on": "7", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add the transfection mix dropwise to the HEK293T cells.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 151.725, "video_path": "videos640/XM_35.mp4", "video_start": 141.275, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_22", "eval_id": "monnext_clean_0117", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":52,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":52,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 32, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 42, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 52, "tds": 10 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 68.275, "video_path": "videos640/XM_22.mp4", "video_start": 56.725, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_22", "eval_id": "monnext_skip_0117", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 32, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 42, "tds": 10 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 6: Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 68.275, "video_path": "videos640/XM_22.mp4", "video_start": 56.725, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "MV_02_26_OUT", "eval_id": "monnext_clean_0118", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load sample into microcentrifuge\"],\"step\":\"1\",\"tas\":57,\"tds\":8}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load sample into microcentrifuge\"],\"step\":\"1\",\"tas\":57,\"tds\":8}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Load sample into microcentrifuge" ], "step": "1", "tas": 57, "tds": 8 } ], "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "t": 0.0 }, { "note": "Retrieve spin column from centrifuge to rack", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 89.0, "video_path": "videos640/MV_02_26_OUT.mp4", "video_start": 81.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_26_OUT", "eval_id": "monnext_skip_0118", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Load sample into microcentrifuge", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "t": 0.0 }, { "note": "Retrieve spin column from centrifuge to rack", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 89.0, "video_path": "videos640/MV_02_26_OUT.mp4", "video_start": 81.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_07_RT", "eval_id": "monnext_clean_0119", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\"],\"step\":\"1\",\"tas\":53,\"tds\":53}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\"],\"step\":\"1\",\"tas\":53,\"tds\":53}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2.5 µL of DNA sample to the microcentrifuge tube" ], "step": "1", "tas": 53, "tds": 53 } ], "on": "2", "protocol": [ { "desc": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "order": 2, "step": "2" }, { "desc": "Transfer 3 µL of Ladder to the microcentrifuge tube", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 166.25, "video_path": "videos640/MV_03_07_RT.mp4", "video_start": 149.75, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_07_RT", "eval_id": "monnext_skip_0119", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "order": 2, "step": "2" }, { "desc": "Transfer 3 µL of Ladder to the microcentrifuge tube", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 166.25, "video_path": "videos640/MV_03_07_RT.mp4", "video_start": 149.75, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_06", "eval_id": "monnext_clean_0120", "history_variant": "clean", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":62,\"tds\":7}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":62,\"tds\":7}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 38, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 46, "tds": 7 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 62, "tds": 7 } ], "on": "7", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Tilt dish to remove residual medium from edges", "t": 0.0 }, { "note": "Add 3ml PBS to dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 86.35, "video_path": "videos640/DJI_06.mp4", "video_start": 81.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_skip_0120", "history_variant": "skipped_last_step", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 38, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 46, "tds": 7 } ], "on": "7", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 6: Aspirate old medium completely using vacuum aspirator", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Tilt dish to remove residual medium from edges", "t": 0.0 }, { "note": "Add 3ml PBS to dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 86.35, "video_path": "videos640/DJI_06.mp4", "video_start": 81.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_07_LF", "eval_id": "monnext_clean_0121", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man" ], "step": "1", "tas": 11, "tds": 11 } ], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 }, { "note": "Dispose of 5mL pipet tip", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.7, "video_path": "videos640/MV_01_07_LF.mp4", "video_start": 22.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_07_LF", "eval_id": "monnext_skip_0121", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Dispense media into flask", "t": 0.0 }, { "note": "Dispose of 5mL pipet tip", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 28.7, "video_path": "videos640/MV_01_07_LF.mp4", "video_start": 22.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "XM_06", "eval_id": "monnext_clean_0122", "history_variant": "clean", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes\",\"pipette Adjustable volume pipette\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack used to hold PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":8,\"tds\":3},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.\",\"reagents\":[\"sterile water (100 µL) In the tube labeled H2O\",\"original sample (100 µL) In the tube labeled S\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes\",\"pipette Adjustable volume pipette\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack used to hold PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":8,\"tds\":3},{\"notes\":[\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.\",\"reagents\":[\"sterile water (100 µL) In the tube labeled H2O\",\"original sample (100 µL) In the tube labeled S\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes", "pipette Adjustable volume pipette", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack used to hold PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 8, "tds": 3 }, { "notes": [ "Add 100 µL of sterile water (in the tube labeled H2O) to each tube." ], "step": "2", "tas": 30, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.", "reagents": [ "sterile water (100 µL) In the tube labeled H2O", "original sample (100 µL) In the tube labeled S" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 36.425, "video_path": "videos640/XM_06.mp4", "video_start": 32.575, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_06", "eval_id": "monnext_skip_0122", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes\",\"pipette Adjustable volume pipette\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack used to hold PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":8,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.\",\"reagents\":[\"sterile water (100 µL) In the tube labeled H2O\",\"original sample (100 µL) In the tube labeled S\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes\",\"pipette Adjustable volume pipette\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack used to hold PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":8,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.\",\"reagents\":[\"sterile water (100 µL) In the tube labeled H2O\",\"original sample (100 µL) In the tube labeled S\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes", "pipette Adjustable volume pipette", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack used to hold PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 8, "tds": 3 } ], "on": "3", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.", "reagents": [ "sterile water (100 µL) In the tube labeled H2O", "original sample (100 µL) In the tube labeled S" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 36.425, "video_path": "videos640/XM_06.mp4", "video_start": 32.575, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_44", "eval_id": "monnext_clean_0123", "history_variant": "clean", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25},{\"notes\":[\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\"],\"step\":\"7\",\"tas\":258,\"tds\":39}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25},{\"notes\":[\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\"],\"step\":\"7\",\"tas\":258,\"tds\":39}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 }, { "notes": [ "Add 2 µL QuickExtract lysate as the DNA template." ], "step": "5", "tas": 174, "tds": 41 }, { "notes": [ "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL." ], "step": "6", "tas": 218, "tds": 25 }, { "notes": [ "Gently mix, briefly spin down to collect contents, and seal the tubes/plate." ], "step": "7", "tas": 258, "tds": 39 } ], "on": "8", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "t": 0.0 }, { "note": "Start the run and proceed to downstream analysis upon completion.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 272.0, "video_path": "videos640/XM_44.mp4", "video_start": 264.4, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_44", "eval_id": "monnext_skip_0123", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 }, { "notes": [ "Add 2 µL QuickExtract lysate as the DNA template." ], "step": "5", "tas": 174, "tds": 41 }, { "notes": [ "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL." ], "step": "6", "tas": 218, "tds": 25 } ], "on": "8", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 7: Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "t": 0.0 }, { "note": "Start the run and proceed to downstream analysis upon completion.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 272.0, "video_path": "videos640/XM_44.mp4", "video_start": 264.4, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_37", "eval_id": "monnext_clean_0124", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57},{\"notes\":[\"Incubate the mixture at room temperature for 15 minutes.\"],\"step\":\"4\",\"tas\":130,\"tds\":31},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":130,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57},{\"notes\":[\"Incubate the mixture at room temperature for 15 minutes.\"],\"step\":\"4\",\"tas\":130,\"tds\":31},{\"notes\":[\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\"],\"step\":\"1\",\"tas\":130,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 40, "tds": 35 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 98, "tds": 57 }, { "notes": [ "Incubate the mixture at room temperature for 15 minutes." ], "step": "4", "tas": 130, "tds": 31 }, { "notes": [ "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish." ], "step": "1", "tas": 130, "tds": 16 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 }, { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 156.9, "video_path": "videos640/DJI_37.mp4", "video_start": 152.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_37", "eval_id": "monnext_skip_0124", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57},{\"notes\":[\"Incubate the mixture at room temperature for 15 minutes.\"],\"step\":\"4\",\"tas\":130,\"tds\":31}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57},{\"notes\":[\"Incubate the mixture at room temperature for 15 minutes.\"],\"step\":\"4\",\"tas\":130,\"tds\":31}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 40, "tds": 35 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 98, "tds": 57 }, { "notes": [ "Incubate the mixture at room temperature for 15 minutes." ], "step": "4", "tas": 130, "tds": 31 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 1: Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 }, { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 156.9, "video_path": "videos640/DJI_37.mp4", "video_start": 152.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_clean_0125", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 77.0, "video_path": "videos640/XM_23.mp4", "video_start": 69.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_23", "eval_id": "monnext_skip_0125", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":20,\"tds\":15},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":37,\"tds\":16},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":47,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 20, "tds": 15 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 37, "tds": 16 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 47, "tds": 9 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 77.0, "video_path": "videos640/XM_23.mp4", "video_start": 69.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0126", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 } ], "on": "4", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Remove 10cm dish from incubator", "t": 0.0 }, { "note": "Place dish in biosafety cabinet", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 49.35, "video_path": "videos640/DJI_07.mp4", "video_start": 44.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0126", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 } ], "on": "4", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Spray all materials with 70% ethanol before placing in hood", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Remove 10cm dish from incubator", "t": 0.0 }, { "note": "Place dish in biosafety cabinet", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 49.35, "video_path": "videos640/DJI_07.mp4", "video_start": 44.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_02_TD", "eval_id": "monnext_clean_0127", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 1.0 µL of Enzyme 1 to the reaction\"],\"step\":\"1\",\"tas\":87,\"tds\":87},{\"notes\":[\"Add 1.0 µL of Enzyme 2 to the reaction\"],\"step\":\"2\",\"tas\":127,\"tds\":38},{\"notes\":[\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\"],\"step\":\"3\",\"tas\":220,\"tds\":35}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 1.0 µL of Enzyme 1 to the reaction\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 1.0 µL of Enzyme 2 to the reaction\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 10X Restriction Enzyme Buffer to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 1.0 µL of Enzyme 1 to the reaction\"],\"step\":\"1\",\"tas\":87,\"tds\":87},{\"notes\":[\"Add 1.0 µL of Enzyme 2 to the reaction\"],\"step\":\"2\",\"tas\":127,\"tds\":38},{\"notes\":[\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\"],\"step\":\"3\",\"tas\":220,\"tds\":35}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 1.0 µL of Enzyme 1 to the reaction\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 1.0 µL of Enzyme 2 to the reaction\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 10X Restriction Enzyme Buffer to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Add 1.0 µL of Enzyme 1 to the reaction" ], "step": "1", "tas": 87, "tds": 87 }, { "notes": [ "Add 1.0 µL of Enzyme 2 to the reaction" ], "step": "2", "tas": 127, "tds": 38 }, { "notes": [ "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)" ], "step": "3", "tas": 220, "tds": 35 } ], "on": "4", "protocol": [ { "desc": "Add 1.0 µL of Enzyme 1 to the reaction", "order": 1, "step": "1" }, { "desc": "Add 1.0 µL of Enzyme 2 to the reaction", "order": 2, "step": "2" }, { "desc": "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "order": 3, "step": "3" }, { "desc": "Add 10X Restriction Enzyme Buffer to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 10X Restriction Enzyme Buffer to the tube", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 283.5, "video_path": "videos640/MV_03_02_TD.mp4", "video_start": 265.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_02_TD", "eval_id": "monnext_skip_0127", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 1.0 µL of Enzyme 1 to the reaction\"],\"step\":\"1\",\"tas\":87,\"tds\":87},{\"notes\":[\"Add 1.0 µL of Enzyme 2 to the reaction\"],\"step\":\"2\",\"tas\":127,\"tds\":38}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 1.0 µL of Enzyme 1 to the reaction\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 1.0 µL of Enzyme 2 to the reaction\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 10X Restriction Enzyme Buffer to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 1.0 µL of Enzyme 1 to the reaction\"],\"step\":\"1\",\"tas\":87,\"tds\":87},{\"notes\":[\"Add 1.0 µL of Enzyme 2 to the reaction\"],\"step\":\"2\",\"tas\":127,\"tds\":38}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 1.0 µL of Enzyme 1 to the reaction\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 1.0 µL of Enzyme 2 to the reaction\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 10X Restriction Enzyme Buffer to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Add 1.0 µL of Enzyme 1 to the reaction" ], "step": "1", "tas": 87, "tds": 87 }, { "notes": [ "Add 1.0 µL of Enzyme 2 to the reaction" ], "step": "2", "tas": 127, "tds": 38 } ], "on": "4", "protocol": [ { "desc": "Add 1.0 µL of Enzyme 1 to the reaction", "order": 1, "step": "1" }, { "desc": "Add 1.0 µL of Enzyme 2 to the reaction", "order": 2, "step": "2" }, { "desc": "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "order": 3, "step": "3" }, { "desc": "Add 10X Restriction Enzyme Buffer to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 10X Restriction Enzyme Buffer to the tube", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 283.5, "video_path": "videos640/MV_03_02_TD.mp4", "video_start": 265.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_44", "eval_id": "monnext_clean_0128", "history_variant": "clean", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25},{\"notes\":[\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\"],\"step\":\"7\",\"tas\":258,\"tds\":39},{\"notes\":[\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\"],\"step\":\"8\",\"tas\":267,\"tds\":8}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25},{\"notes\":[\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\"],\"step\":\"7\",\"tas\":258,\"tds\":39},{\"notes\":[\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\"],\"step\":\"8\",\"tas\":267,\"tds\":8}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 }, { "notes": [ "Add 2 µL QuickExtract lysate as the DNA template." ], "step": "5", "tas": 174, "tds": 41 }, { "notes": [ "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL." ], "step": "6", "tas": 218, "tds": 25 }, { "notes": [ "Gently mix, briefly spin down to collect contents, and seal the tubes/plate." ], "step": "7", "tas": 258, "tds": 39 }, { "notes": [ "Place reactions into the PCR machine and select the saved Phanta PCR amplification program." ], "step": "8", "tas": 267, "tds": 8 } ], "on": "9", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Start the run and proceed to downstream analysis upon completion.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 281.95, "video_path": "videos640/XM_44.mp4", "video_start": 272.05, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_44", "eval_id": "monnext_skip_0128", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25},{\"notes\":[\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\"],\"step\":\"7\",\"tas\":258,\"tds\":39}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25},{\"notes\":[\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\"],\"step\":\"7\",\"tas\":258,\"tds\":39}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 }, { "notes": [ "Add 2 µL QuickExtract lysate as the DNA template." ], "step": "5", "tas": 174, "tds": 41 }, { "notes": [ "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL." ], "step": "6", "tas": 218, "tds": 25 }, { "notes": [ "Gently mix, briefly spin down to collect contents, and seal the tubes/plate." ], "step": "7", "tas": 258, "tds": 39 } ], "on": "9", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 8: Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "error_type": "step_skipped", "step_ref": "8", "t": 0.0 } ], "new_notes": [ { "note": "Start the run and proceed to downstream analysis upon completion.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 8 was completed before continuing." }, "target_error_step_id": "8", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 281.95, "video_path": "videos640/XM_44.mp4", "video_start": 272.05, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_32", "eval_id": "monnext_clean_0129", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":39,\"tds\":6},{\"notes\":[\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\"],\"step\":\"5\",\"tas\":43,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":39,\"tds\":6},{\"notes\":[\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\"],\"step\":\"5\",\"tas\":43,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 31, "tds": 15 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 39, "tds": 6 }, { "notes": [ "Add 5 µL of DNA ladder (with loading buffer) into a separate well." ], "step": "5", "tas": 43, "tds": 3 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 53.15, "video_path": "videos640/DJI_32.mp4", "video_start": 47.75, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_32", "eval_id": "monnext_skip_0129", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":39,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":39,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 31, "tds": 15 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 39, "tds": 6 } ], "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "6" ], "task_type": "monitor_next_step_delta", "video_end": 53.15, "video_path": "videos640/DJI_32.mp4", "video_start": 47.75, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_37", "eval_id": "monnext_clean_0130", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":98,\"tds\":57}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 40, "tds": 35 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 98, "tds": 57 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 }, { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1", "5" ], "task_type": "monitor_next_step_delta", "video_end": 135.0, "video_path": "videos640/DJI_37.mp4", "video_start": 127.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_37", "eval_id": "monnext_skip_0130", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":40,\"tds\":35}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 40, "tds": 35 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 }, { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1", "5" ], "task_type": "monitor_next_step_delta", "video_end": 135.0, "video_path": "videos640/DJI_37.mp4", "video_start": 127.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_03_HD", "eval_id": "monnext_clean_0131", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Disinfect Hood surface using ethanol\"],\"step\":\"1\",\"tas\":23,\"tds\":23}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Disinfect Hood surface using ethanol\"],\"step\":\"1\",\"tas\":23,\"tds\":23}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Disinfect Hood surface using ethanol" ], "step": "1", "tas": 23, "tds": 23 } ], "on": "2", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" }, { "desc": "Grab cell media, trypsin, and lypan blue (reagents)", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "place sterile 5mL pipette man pipet tip on vent in front of hood", "t": 0.0 }, { "note": "Grab cell media, trypsin, and lypan blue (reagents)", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 33.0, "video_path": "videos640/MV_01_03_HD.mp4", "video_start": 26.3, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_03_HD", "eval_id": "monnext_skip_0131", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" }, { "desc": "Grab cell media, trypsin, and lypan blue (reagents)", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Disinfect Hood surface using ethanol", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "place sterile 5mL pipette man pipet tip on vent in front of hood", "t": 0.0 }, { "note": "Grab cell media, trypsin, and lypan blue (reagents)", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 33.0, "video_path": "videos640/MV_01_03_HD.mp4", "video_start": 26.3, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_clean_0132", "history_variant": "clean", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":70,\"tds\":17}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 }, { "notes": [ "Mix well." ], "step": "4", "tas": 70, "tds": 17 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 }, { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 84.0, "video_path": "videos640/DJI_10.mp4", "video_start": 76.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_skip_0132", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 4: Mix well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 }, { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 84.0, "video_path": "videos640/DJI_10.mp4", "video_start": 76.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_clean_0133", "history_variant": "clean", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 } ], "on": "3", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Spray all materials with 70% ethanol before placing in hood", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 23.95, "video_path": "videos640/DJI_06.mp4", "video_start": 14.05, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_06", "eval_id": "monnext_skip_0133", "history_variant": "skipped_last_step", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 } ], "on": "3", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Get all reagents", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Spray all materials with 70% ethanol before placing in hood", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 23.95, "video_path": "videos640/DJI_06.mp4", "video_start": 14.05, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_02_01_RT", "eval_id": "monnext_clean_0134", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load bacterial culture tubes into centrifuge\"],\"step\":\"1\",\"tas\":13,\"tds\":13},{\"notes\":[\"Start centrifuge at 7000 x g for 3 min\"],\"step\":\"2\",\"tas\":27,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load bacterial culture tubes into centrifuge\"],\"step\":\"1\",\"tas\":13,\"tds\":13},{\"notes\":[\"Start centrifuge at 7000 x g for 3 min\"],\"step\":\"2\",\"tas\":27,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Load bacterial culture tubes into centrifuge" ], "step": "1", "tas": 13, "tds": 13 }, { "notes": [ "Start centrifuge at 7000 x g for 3 min" ], "step": "2", "tas": 27, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Load bacterial culture tubes into centrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at 7000 x g for 3 min", "order": 2, "step": "2" }, { "desc": "Remove supernatant and keep the bacterial pellet", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Remove supernatant and keep the bacterial pellet", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 400.5, "video_path": "videos640/MV_02_01_RT.mp4", "video_start": 382.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_02_01_RT", "eval_id": "monnext_skip_0134", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load bacterial culture tubes into centrifuge\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load bacterial culture tubes into centrifuge\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Load bacterial culture tubes into centrifuge" ], "step": "1", "tas": 13, "tds": 13 } ], "on": "3", "protocol": [ { "desc": "Load bacterial culture tubes into centrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at 7000 x g for 3 min", "order": 2, "step": "2" }, { "desc": "Remove supernatant and keep the bacterial pellet", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Start centrifuge at 7000 x g for 3 min", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Remove supernatant and keep the bacterial pellet", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 400.5, "video_path": "videos640/MV_02_01_RT.mp4", "video_start": 382.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_26", "eval_id": "monnext_clean_0135", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":71,\"tds\":12},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":95,\"tds\":23}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":71,\"tds\":12},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":95,\"tds\":23}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 34, "tds": 15 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 45, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 12 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 71, "tds": 12 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 95, "tds": 23 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8" ], "task_type": "monitor_next_step_delta", "video_end": 103.75, "video_path": "videos640/DJI_26.mp4", "video_start": 98.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_26", "eval_id": "monnext_skip_0135", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":71,\"tds\":12}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":71,\"tds\":12}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 34, "tds": 15 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 45, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 12 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 71, "tds": 12 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 7: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8" ], "task_type": "monitor_next_step_delta", "video_end": 103.75, "video_path": "videos640/DJI_26.mp4", "video_start": 98.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_29", "eval_id": "monnext_clean_0136", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 12 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 28.0, "video_path": "videos640/DJI_29.mp4", "video_start": 20.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_29", "eval_id": "monnext_skip_0136", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 28.0, "video_path": "videos640/DJI_29.mp4", "video_start": 20.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_clean_0137", "history_variant": "clean", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":53,\"tds\":19}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 53, "tds": 19 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Mix well.", "t": 0.0 }, { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "6" ], "task_type": "monitor_next_step_delta", "video_end": 74.0, "video_path": "videos640/DJI_10.mp4", "video_start": 66.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_skip_0137", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 3: Add reagent 3 into the EP tube.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Mix well.", "t": 0.0 }, { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "6" ], "task_type": "monitor_next_step_delta", "video_end": 74.0, "video_path": "videos640/DJI_10.mp4", "video_start": 66.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_65", "eval_id": "monnext_clean_0138", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"micropipette\",\"CO2 incubator Set to 37°C, 5% CO2.\",\"ice bucket Used for thawing virus.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":12,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium.\",\"lentivirus suspension Added at desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"micropipette\",\"CO2 incubator Set to 37°C, 5% CO2.\",\"ice bucket Used for thawing virus.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":12,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium.\",\"lentivirus suspension Added at desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains target cells.", "micropipette", "CO2 incubator Set to 37°C, 5% CO2.", "ice bucket Used for thawing virus." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 12, "tds": 11 } ], "on": "2", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium.", "lentivirus suspension Added at desired MOI." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Thaw the required aliquot of lentivirus on ice.", "t": 0.0 }, { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "4" ], "task_type": "monitor_next_step_delta", "video_end": 30.25, "video_path": "videos640/DJI_65.mp4", "video_start": 24.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_65", "eval_id": "monnext_skip_0138", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"micropipette\",\"CO2 incubator Set to 37°C, 5% CO2.\",\"ice bucket Used for thawing virus.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium.\",\"lentivirus suspension Added at desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"micropipette\",\"CO2 incubator Set to 37°C, 5% CO2.\",\"ice bucket Used for thawing virus.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium.\",\"lentivirus suspension Added at desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains target cells.", "micropipette", "CO2 incubator Set to 37°C, 5% CO2.", "ice bucket Used for thawing virus." ], "history": [], "on": "2", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium.", "lentivirus suspension Added at desired MOI." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Thaw the required aliquot of lentivirus on ice.", "t": 0.0 }, { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "4" ], "task_type": "monitor_next_step_delta", "video_end": 30.25, "video_path": "videos640/DJI_65.mp4", "video_start": 24.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_03", "eval_id": "monnext_clean_0139", "history_variant": "clean", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8},{\"notes\":[\"Add template DNA (in the tube labeled T).\"],\"step\":\"4\",\"tas\":31,\"tds\":0}],\"on\":\"5\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8},{\"notes\":[\"Add template DNA (in the tube labeled T).\"],\"step\":\"4\",\"tas\":31,\"tds\":0}],\"on\":\"5\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "adjustable volume pipette", "pipette tips", "0.2 mL PCR tubes", "tube rack", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 21, "tds": 11 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 30, "tds": 8 }, { "notes": [ "Add template DNA (in the tube labeled T)." ], "step": "4", "tas": 31, "tds": 0 } ], "on": "5", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.", "reagents": [ "Master Mix In the tube labeled M", "Forward Primer In the tube labeled F", "Reverse Primer In the tube labeled R", "Template DNA In the tube labeled T" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 37.2, "video_path": "videos640/XM_03.mp4", "video_start": 32.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_03", "eval_id": "monnext_skip_0139", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8}],\"on\":\"5\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"adjustable volume pipette\",\"pipette tips\",\"0.2 mL PCR tubes\",\"tube rack\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":21,\"tds\":11},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":30,\"tds\":8}],\"on\":\"5\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.\",\"reagents\":[\"Master Mix In the tube labeled M\",\"Forward Primer In the tube labeled F\",\"Reverse Primer In the tube labeled R\",\"Template DNA In the tube labeled T\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "adjustable volume pipette", "pipette tips", "0.2 mL PCR tubes", "tube rack", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 21, "tds": 11 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 30, "tds": 8 } ], "on": "5", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction mixture by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing, centrifugation, and thermocycling.", "reagents": [ "Master Mix In the tube labeled M", "Forward Primer In the tube labeled F", "Reverse Primer In the tube labeled R", "Template DNA In the tube labeled T" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add template DNA (in the tube labeled T).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 37.2, "video_path": "videos640/XM_03.mp4", "video_start": 32.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_clean_0140", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Mix well.", "t": 0.0 }, { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "6" ], "task_type": "monitor_next_step_delta", "video_end": 84.0, "video_path": "videos640/DJI_09.mp4", "video_start": 76.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_09", "eval_id": "monnext_skip_0140", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 3: Add reagent 3 into the EP tube.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Mix well.", "t": 0.0 }, { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "6" ], "task_type": "monitor_next_step_delta", "video_end": 84.0, "video_path": "videos640/DJI_09.mp4", "video_start": 76.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_24", "eval_id": "monnext_clean_0141", "history_variant": "clean", "operation": "Serial_Dilution_Wrong", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tubes sterile\",\"pipette\",\"pipette tips\"],\"history\":[{\"notes\":[\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\"],\"step\":\"2\",\"tas\":44,\"tds\":42}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.\",\"reagents\":[\"original sample\",\"buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tubes sterile\",\"pipette\",\"pipette tips\"],\"history\":[{\"notes\":[\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\"],\"step\":\"2\",\"tas\":44,\"tds\":42}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.\",\"reagents\":[\"original sample\",\"buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tubes sterile", "pipette", "pipette tips" ], "history": [ { "notes": [ "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes." ], "step": "2", "tas": 44, "tds": 42 } ], "on": "3", "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.", "reagents": [ "original sample", "buffer" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 72.0, "video_path": "videos640/XM_24.mp4", "video_start": 64.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_24", "eval_id": "monnext_skip_0141", "history_variant": "skipped_last_step", "operation": "Serial_Dilution_Wrong", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tubes sterile\",\"pipette\",\"pipette tips\"],\"history\":[{\"notes\":[\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\"],\"step\":\"1\",\"tas\":2,\"tds\":2}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.\",\"reagents\":[\"original sample\",\"buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tubes sterile\",\"pipette\",\"pipette tips\"],\"history\":[{\"notes\":[\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\"],\"step\":\"1\",\"tas\":2,\"tds\":2}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.\",\"reagents\":[\"original sample\",\"buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tubes sterile", "pipette", "pipette tips" ], "history": [ { "notes": [ "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³." ], "step": "1", "tas": 2, "tds": 2 } ], "on": "3", "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.", "reagents": [ "original sample", "buffer" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "t": 0.0 }, { "note": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 72.0, "video_path": "videos640/XM_24.mp4", "video_start": 64.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_29", "eval_id": "monnext_clean_0142", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":36,\"tds\":12},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":47,\"tds\":11}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":36,\"tds\":12},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":47,\"tds\":11}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 12 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 24, "tds": 12 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 36, "tds": 12 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 47, "tds": 11 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 60.175, "video_path": "videos640/DJI_29.mp4", "video_start": 50.825, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_29", "eval_id": "monnext_skip_0142", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":36,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":36,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 12 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 24, "tds": 12 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 36, "tds": 12 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 60.175, "video_path": "videos640/DJI_29.mp4", "video_start": 50.825, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_01_05_CH", "eval_id": "monnext_clean_0143", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place cell cytometer and calculator on top of cart near hood\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place cell cytometer and calculator on top of cart near hood\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place cell cytometer and calculator on top of cart near hood" ], "step": "1", "tas": 12, "tds": 12 } ], "on": "2", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "t": 0.0 }, { "note": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 62.0, "video_path": "videos640/MV_01_05_CH.mp4", "video_start": 54.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_05_CH", "eval_id": "monnext_skip_0143", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Place cell cytometer and calculator on top of cart near hood", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "t": 0.0 }, { "note": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 62.0, "video_path": "videos640/MV_01_05_CH.mp4", "video_start": 54.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "XM_25", "eval_id": "monnext_clean_0144", "history_variant": "clean", "operation": "Serial_Dilution_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tubes Four sterile tubes required.\",\"pipette Used for transferring and mixing liquids.\",\"marker Used for labeling tubes.\"],\"history\":[{\"notes\":[\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\"],\"step\":\"2\",\"tas\":29,\"tds\":26},{\"notes\":[\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\"],\"step\":\"3\",\"tas\":55,\"tds\":25}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.\",\"reagents\":[\"original sample Used to create the dilution series.\",\"buffer Used as the diluent.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution of a Sample", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tubes Four sterile tubes required.\",\"pipette Used for transferring and mixing liquids.\",\"marker Used for labeling tubes.\"],\"history\":[{\"notes\":[\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\"],\"step\":\"2\",\"tas\":29,\"tds\":26},{\"notes\":[\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\"],\"step\":\"3\",\"tas\":55,\"tds\":25}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.\",\"reagents\":[\"original sample Used to create the dilution series.\",\"buffer Used as the diluent.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tubes Four sterile tubes required.", "pipette Used for transferring and mixing liquids.", "marker Used for labeling tubes." ], "history": [ { "notes": [ "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes." ], "step": "2", "tas": 29, "tds": 26 }, { "notes": [ "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting." ], "step": "3", "tas": 55, "tds": 25 } ], "on": "4", "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.", "reagents": [ "original sample Used to create the dilution series.", "buffer Used as the diluent." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 87.0, "video_path": "videos640/XM_25.mp4", "video_start": 69.0, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_25", "eval_id": "monnext_skip_0144", "history_variant": "skipped_last_step", "operation": "Serial_Dilution_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tubes Four sterile tubes required.\",\"pipette Used for transferring and mixing liquids.\",\"marker Used for labeling tubes.\"],\"history\":[{\"notes\":[\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\"],\"step\":\"2\",\"tas\":29,\"tds\":26}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.\",\"reagents\":[\"original sample Used to create the dilution series.\",\"buffer Used as the diluent.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution of a Sample", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tubes Four sterile tubes required.\",\"pipette Used for transferring and mixing liquids.\",\"marker Used for labeling tubes.\"],\"history\":[{\"notes\":[\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\"],\"step\":\"2\",\"tas\":29,\"tds\":26}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.\",\"reagents\":[\"original sample Used to create the dilution series.\",\"buffer Used as the diluent.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tubes Four sterile tubes required.", "pipette Used for transferring and mixing liquids.", "marker Used for labeling tubes." ], "history": [ { "notes": [ "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes." ], "step": "2", "tas": 29, "tds": 26 } ], "on": "4", "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.", "reagents": [ "original sample Used to create the dilution series.", "buffer Used as the diluent." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 87.0, "video_path": "videos640/XM_25.mp4", "video_start": 69.0, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_28", "eval_id": "monnext_clean_0145", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 62, "tds": 16 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 70.8, "video_path": "videos640/DJI_28.mp4", "video_start": 65.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_28", "eval_id": "monnext_skip_0145", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 7: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 70.8, "video_path": "videos640/DJI_28.mp4", "video_start": 65.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_clean_0146", "history_variant": "clean", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 38, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 46, "tds": 7 } ], "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 }, { "note": "Tilt dish to remove residual medium from edges", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 66.0, "video_path": "videos640/DJI_06.mp4", "video_start": 58.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_skip_0146", "history_variant": "skipped_last_step", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 38, "tds": 7 } ], "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Place dish in biosafety cabinet", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 }, { "note": "Tilt dish to remove residual medium from edges", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 66.0, "video_path": "videos640/DJI_06.mp4", "video_start": 58.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_21", "eval_id": "monnext_clean_0147", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 22, "tds": 1 } ], "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 }, { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 30.0, "video_path": "videos640/DJI_21.mp4", "video_start": 24.65, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_21", "eval_id": "monnext_skip_0147", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 } ], "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Mix gently by flicking the tube 4-5 times.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 }, { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 30.0, "video_path": "videos640/DJI_21.mp4", "video_start": 24.65, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_06_HG", "eval_id": "monnext_clean_0148", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140},{\"notes\":[\"Pour the liquid agarose slowly into the casting tray\"],\"step\":\"3\",\"tas\":219,\"tds\":22}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140},{\"notes\":[\"Pour the liquid agarose slowly into the casting tray\"],\"step\":\"3\",\"tas\":219,\"tds\":22}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve the 5 0.5mL centrifuge tubes" ], "step": "1", "tas": 48, "tds": 48 }, { "notes": [ "Label centrifuge tubes" ], "step": "2", "tas": 188, "tds": 140 }, { "notes": [ "Pour the liquid agarose slowly into the casting tray" ], "step": "3", "tas": 219, "tds": 22 } ], "on": "4", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 493.5, "video_path": "videos640/MV_03_06_HG.mp4", "video_start": 475.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_06_HG", "eval_id": "monnext_skip_0148", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48},{\"notes\":[\"Label centrifuge tubes\"],\"step\":\"2\",\"tas\":188,\"tds\":140}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve the 5 0.5mL centrifuge tubes" ], "step": "1", "tas": 48, "tds": 48 }, { "notes": [ "Label centrifuge tubes" ], "step": "2", "tas": 188, "tds": 140 } ], "on": "4", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Pour the liquid agarose slowly into the casting tray", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 493.5, "video_path": "videos640/MV_03_06_HG.mp4", "video_start": 475.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_15_RF", "eval_id": "monnext_clean_0149", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip" ], "step": "1", "tas": 12, "tds": 12 } ], "on": "2", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Collect 1st 750uL of trypsin", "t": 0.0 }, { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 24.8, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 19.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_15_RF", "eval_id": "monnext_skip_0149", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Collect 1st 750uL of trypsin", "t": 0.0 }, { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 24.8, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 19.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_11_HD", "eval_id": "monnext_clean_0150", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Attach pipet to pipetterman without touching the glass" ], "step": "1", "tas": 0, "tds": 0 } ], "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Attach 5mL pipet tip to pipette man", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 4.65, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 1.35, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_11_HD", "eval_id": "monnext_skip_0150", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Attach pipet to pipetterman without touching the glass", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Attach 5mL pipet tip to pipette man", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 4.65, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 1.35, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_06", "eval_id": "monnext_clean_0151", "history_variant": "clean", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 } ], "on": "4", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Remove 10cm dish from incubator", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 36.425, "video_path": "videos640/DJI_06.mp4", "video_start": 32.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_06", "eval_id": "monnext_skip_0151", "history_variant": "skipped_last_step", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 } ], "on": "4", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Spray all materials with 70% ethanol before placing in hood", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Remove 10cm dish from incubator", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 36.425, "video_path": "videos640/DJI_06.mp4", "video_start": 32.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_32", "eval_id": "monnext_clean_0152", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 31, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 41.35, "video_path": "videos640/DJI_32.mp4", "video_start": 37.3, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_32", "eval_id": "monnext_skip_0152", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 2.2: 2 µL 6× E-gel loading buffer", "error_type": "step_skipped", "step_ref": "2.2", "t": 0.0 } ], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.2 was completed before continuing." }, "target_error_step_id": "2.2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 41.35, "video_path": "videos640/DJI_32.mp4", "video_start": 37.3, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_24", "eval_id": "monnext_clean_0153", "history_variant": "clean", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":23,\"tds\":16},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":43,\"tds\":19},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":74,\"tds\":12},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":90,\"tds\":8}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokines to Cell Culture", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":23,\"tds\":16},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":43,\"tds\":19},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":74,\"tds\":12},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":90,\"tds\":8}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator HERACELL VIOS 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "pipette controller Used with serological pipettes.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokines.", "6-well culture plate Contains the cell culture.", "inverted microscope EVOS M5000 imaging system." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 23, "tds": 16 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 43, "tds": 19 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 74, "tds": 12 }, { "notes": [ "Add cytokine(s) to the medium at the desired working concentration." ], "step": "5", "tas": 90, "tds": 8 } ], "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the plate.", "cytokine(s) Added to the fresh medium." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 111.95, "video_path": "videos640/DJI_24.mp4", "video_start": 102.05, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_24", "eval_id": "monnext_skip_0153", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":23,\"tds\":16},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":43,\"tds\":19},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":74,\"tds\":12}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokines to Cell Culture", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":6,\"tds\":6},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":23,\"tds\":16},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":43,\"tds\":19},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":74,\"tds\":12}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator HERACELL VIOS 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "pipette controller Used with serological pipettes.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokines.", "6-well culture plate Contains the cell culture.", "inverted microscope EVOS M5000 imaging system." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 6, "tds": 6 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 23, "tds": 16 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 43, "tds": 19 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 74, "tds": 12 } ], "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the plate.", "cytokine(s) Added to the fresh medium." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Add cytokine(s) to the medium at the desired working concentration.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 111.95, "video_path": "videos640/DJI_24.mp4", "video_start": 102.05, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_19", "eval_id": "monnext_clean_0154", "history_variant": "clean", "operation": "Transformation (correct) replicate 2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":31,\"tds\":3},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":7}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":31,\"tds\":3},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":7}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "heat block / water bath used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 31, "tds": 3 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 38, "tds": 7 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 }, { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 48.6, "video_path": "videos640/DJI_19.mp4", "video_start": 41.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_19", "eval_id": "monnext_skip_0154", "history_variant": "skipped_last_step", "operation": "Transformation (correct) replicate 2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":31,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":31,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "heat block / water bath used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 31, "tds": 3 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Incubate the DNA-cell mixture on ice for 5 seconds.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 }, { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 48.6, "video_path": "videos640/DJI_19.mp4", "video_start": 41.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_08", "eval_id": "monnext_clean_0155", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"11\",\"tas\":112,\"tds\":6},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"12\",\"tas\":121,\"tds\":2},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"13\",\"tas\":148,\"tds\":27},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"14\",\"tas\":152,\"tds\":4},{\"notes\":[\"Pipette up and down 5-10 times to create single cell suspension\"],\"step\":\"15\",\"tas\":166,\"tds\":12},{\"notes\":[\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\"],\"step\":\"16\",\"tas\":180,\"tds\":7}],\"on\":\"18\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"11\",\"tas\":112,\"tds\":6},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"12\",\"tas\":121,\"tds\":2},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"13\",\"tas\":148,\"tds\":27},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"14\",\"tas\":152,\"tds\":4},{\"notes\":[\"Pipette up and down 5-10 times to create single cell suspension\"],\"step\":\"15\",\"tas\":166,\"tds\":12},{\"notes\":[\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\"],\"step\":\"16\",\"tas\":180,\"tds\":7}],\"on\":\"18\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 }, { "notes": [ "Add 3ml PBS to dish" ], "step": "8", "tas": 85, "tds": 8 }, { "notes": [ "Gently rock dish to wash cell surface" ], "step": "9", "tas": 89, "tds": 2 }, { "notes": [ "Aspirate PBS completely" ], "step": "10", "tas": 94, "tds": 4 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "11", "tas": 112, "tds": 6 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "12", "tas": 121, "tds": 2 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "13", "tas": 148, "tds": 27 }, { "notes": [ "Add 5ml complete medium to dish" ], "step": "14", "tas": 152, "tds": 4 }, { "notes": [ "Pipette up and down 5-10 times to create single cell suspension" ], "step": "15", "tas": 166, "tds": 12 }, { "notes": [ "Transfer entire 6ml cell suspension to sterile 50ml conical tube" ], "step": "16", "tas": 180, "tds": 7 } ], "on": "18", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "18", "target_delta": { "current_step": "18", "errors": [], "new_notes": [ { "note": "Add 5ml cell suspension to new 10cm dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "18", "target_visible_step_ids": [ "18" ], "task_type": "monitor_next_step_delta", "video_end": 204.875, "video_path": "videos640/DJI_08.mp4", "video_start": 202.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_08", "eval_id": "monnext_skip_0155", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"11\",\"tas\":112,\"tds\":6},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"12\",\"tas\":121,\"tds\":2},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"13\",\"tas\":148,\"tds\":27},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"14\",\"tas\":152,\"tds\":4},{\"notes\":[\"Pipette up and down 5-10 times to create single cell suspension\"],\"step\":\"15\",\"tas\":166,\"tds\":12}],\"on\":\"18\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":52,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":64,\"tds\":5},{\"notes\":[\"Add 3ml PBS to dish\"],\"step\":\"8\",\"tas\":85,\"tds\":8},{\"notes\":[\"Gently rock dish to wash cell surface\"],\"step\":\"9\",\"tas\":89,\"tds\":2},{\"notes\":[\"Aspirate PBS completely\"],\"step\":\"10\",\"tas\":94,\"tds\":4},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"11\",\"tas\":112,\"tds\":6},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"12\",\"tas\":121,\"tds\":2},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"13\",\"tas\":148,\"tds\":27},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"14\",\"tas\":152,\"tds\":4},{\"notes\":[\"Pipette up and down 5-10 times to create single cell suspension\"],\"step\":\"15\",\"tas\":166,\"tds\":12}],\"on\":\"18\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 52, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 64, "tds": 5 }, { "notes": [ "Add 3ml PBS to dish" ], "step": "8", "tas": 85, "tds": 8 }, { "notes": [ "Gently rock dish to wash cell surface" ], "step": "9", "tas": 89, "tds": 2 }, { "notes": [ "Aspirate PBS completely" ], "step": "10", "tas": 94, "tds": 4 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "11", "tas": 112, "tds": 6 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "12", "tas": 121, "tds": 2 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "13", "tas": 148, "tds": 27 }, { "notes": [ "Add 5ml complete medium to dish" ], "step": "14", "tas": 152, "tds": 4 }, { "notes": [ "Pipette up and down 5-10 times to create single cell suspension" ], "step": "15", "tas": 166, "tds": 12 } ], "on": "18", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "18", "target_delta": { "current_step": "18", "errors": [ { "description": "The state is missing previously completed step 16: Transfer entire 6ml cell suspension to sterile 50ml conical tube", "error_type": "step_skipped", "step_ref": "16", "t": 0.0 } ], "new_notes": [ { "note": "Add 5ml cell suspension to new 10cm dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 16 was completed before continuing." }, "target_error_step_id": "16", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "18", "target_visible_step_ids": [ "18" ], "task_type": "monitor_next_step_delta", "video_end": 204.875, "video_path": "videos640/DJI_08.mp4", "video_start": 202.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_27", "eval_id": "monnext_clean_0156", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":48,\"tds\":48},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":21}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":48,\"tds\":48},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":21}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume micropipette", "Pipette tips Disposable plastic tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice for reagent stability", "Microcentrifuge Small benchtop centrifuge for quick spins", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 48, "tds": 48 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 70, "tds": 21 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 83.0, "video_path": "videos640/DJI_27.mp4", "video_start": 75.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_27", "eval_id": "monnext_skip_0156", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":48,\"tds\":48}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":48,\"tds\":48}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume micropipette", "Pipette tips Disposable plastic tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice for reagent stability", "Microcentrifuge Small benchtop centrifuge for quick spins", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 48, "tds": 48 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 7: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 83.0, "video_path": "videos640/DJI_27.mp4", "video_start": 75.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0157", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29},{\"notes\":[\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\"],\"step\":\"14\",\"tas\":182,\"tds\":9}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29},{\"notes\":[\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\"],\"step\":\"14\",\"tas\":182,\"tds\":9}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 }, { "notes": [ "Incubate at 37°C for 1 minutes" ], "step": "10", "tas": 114, "tds": 10 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "11", "tas": 142, "tds": 13 }, { "notes": [ "Add 5ml complete medium to dish" ], "step": "12", "tas": 172, "tds": 29 }, { "notes": [ "Transfer entire 6ml cell suspension to sterile 50ml conical tube" ], "step": "14", "tas": 182, "tds": 9 } ], "on": "16", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "16", "target_delta": { "current_step": "16", "errors": [], "new_notes": [ { "note": "Add 5ml cell suspension to new 10cm dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "16", "target_visible_step_ids": [ "16" ], "task_type": "monitor_next_step_delta", "video_end": 198.425, "video_path": "videos640/DJI_07.mp4", "video_start": 194.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0157", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 }, { "notes": [ "Incubate at 37°C for 1 minutes" ], "step": "10", "tas": 114, "tds": 10 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "11", "tas": 142, "tds": 13 }, { "notes": [ "Add 5ml complete medium to dish" ], "step": "12", "tas": 172, "tds": 29 } ], "on": "16", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "16", "target_delta": { "current_step": "16", "errors": [ { "description": "The state is missing previously completed step 14: Transfer entire 6ml cell suspension to sterile 50ml conical tube", "error_type": "step_skipped", "step_ref": "14", "t": 0.0 } ], "new_notes": [ { "note": "Add 5ml cell suspension to new 10cm dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 14 was completed before continuing." }, "target_error_step_id": "14", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "16", "target_visible_step_ids": [ "16" ], "task_type": "monitor_next_step_delta", "video_end": 198.425, "video_path": "videos640/DJI_07.mp4", "video_start": 194.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_11", "eval_id": "monnext_clean_0158", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":49,\"tds\":1}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":49,\"tds\":1}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 38, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 48, "tds": 9 }, { "notes": [ "Incubate at room temperature for 20 min." ], "step": "5", "tas": 49, "tds": 1 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 53.65, "video_path": "videos640/DJI_11.mp4", "video_start": 50.35, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_11", "eval_id": "monnext_skip_0158", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":48,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 38, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 48, "tds": 9 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Incubate at room temperature for 20 min.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 53.65, "video_path": "videos640/DJI_11.mp4", "video_start": 50.35, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_30", "eval_id": "monnext_clean_0159", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":15}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":15}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 44, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 54, "tds": 9 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 70, "tds": 15 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 80.25, "video_path": "videos640/DJI_30.mp4", "video_start": 75.3, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_skip_0159", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 44, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 54, "tds": 9 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 7: Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "error_type": "step_skipped", "step_ref": "7", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 }, { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 7 was completed before continuing." }, "target_error_step_id": "7", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 80.25, "video_path": "videos640/DJI_30.mp4", "video_start": 75.3, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_08_TD", "eval_id": "monnext_clean_0160", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27},{\"notes\":[\"Gently pull the comb straight upward out of the gel\"],\"step\":\"2\",\"tas\":308,\"tds\":32}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27},{\"notes\":[\"Gently pull the comb straight upward out of the gel\"],\"step\":\"2\",\"tas\":308,\"tds\":32}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder" ], "step": "1", "tas": 27, "tds": 27 }, { "notes": [ "Gently pull the comb straight upward out of the gel" ], "step": "2", "tas": 308, "tds": 32 } ], "on": "3", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 392.0, "video_path": "videos640/MV_03_08_TD.mp4", "video_start": 374.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_08_TD", "eval_id": "monnext_skip_0160", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder" ], "step": "1", "tas": 27, "tds": 27 } ], "on": "3", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Gently pull the comb straight upward out of the gel", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 392.0, "video_path": "videos640/MV_03_08_TD.mp4", "video_start": 374.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_10", "eval_id": "monnext_clean_0161", "history_variant": "clean", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":34,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 34, "tds": 14 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 48.725, "video_path": "videos640/DJI_10.mp4", "video_start": 38.275, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_10", "eval_id": "monnext_skip_0161", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Add reagent 2 into the EP tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 48.725, "video_path": "videos640/DJI_10.mp4", "video_start": 38.275, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_22", "eval_id": "monnext_clean_0162", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 32, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 42, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 49.75, "video_path": "videos640/XM_22.mp4", "video_start": 44.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_22", "eval_id": "monnext_skip_0162", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 32, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 49.75, "video_path": "videos640/XM_22.mp4", "video_start": 44.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_09", "eval_id": "monnext_clean_0163", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":22,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":22,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette Pre-cast agarose gel cassette.", "E-gel power base Power supply and base for the E-gel cassette.", "Pipette Used to load samples into the gel wells.", "Pipette tips Disposable tips for the pipette." ], "history": [ { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 22, "tds": 12 } ], "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.", "reagents": [ "DNA sample (10 µL) Prepared DNA sample for electrophoresis.", "DNA ladder (10 µL) Used as a size standard." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 33.85, "video_path": "videos640/XM_09.mp4", "video_start": 26.15, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_09", "eval_id": "monnext_skip_0163", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette Pre-cast agarose gel cassette.", "E-gel power base Power supply and base for the E-gel cassette.", "Pipette Used to load samples into the gel wells.", "Pipette tips Disposable tips for the pipette." ], "history": [ { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "1", "tas": 9, "tds": 9 } ], "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.", "reagents": [ "DNA sample (10 µL) Prepared DNA sample for electrophoresis.", "DNA ladder (10 µL) Used as a size standard." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Load 10 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 33.85, "video_path": "videos640/XM_09.mp4", "video_start": 26.15, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_19", "eval_id": "monnext_clean_0164", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "t": 0.0 }, { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 20.0, "video_path": "videos640/XM_19.mp4", "video_start": 12.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_19", "eval_id": "monnext_skip_0164", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [], "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "t": 0.0 }, { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 20.0, "video_path": "videos640/XM_19.mp4", "video_start": 12.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_03", "eval_id": "monnext_clean_0165", "history_variant": "clean", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":12},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":41,\"tds\":10},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":53,\"tds\":11},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":77,\"tds\":23},{\"notes\":[\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\"],\"step\":\"6\",\"tas\":95,\"tds\":17}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":12},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":41,\"tds\":10},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":53,\"tds\":11},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":77,\"tds\":23},{\"notes\":[\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\"],\"step\":\"6\",\"tas\":95,\"tds\":17}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 17, "tds": 16 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 30, "tds": 12 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 41, "tds": 10 }, { "notes": [ "Mix well." ], "step": "4", "tas": 53, "tds": 11 }, { "notes": [ "Incubate at room temperature for 20 min." ], "step": "5", "tas": 77, "tds": 23 }, { "notes": [ "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency)." ], "step": "6", "tas": 95, "tds": 17 } ], "on": "7", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 113.05, "video_path": "videos640/DJI_03.mp4", "video_start": 100.95, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_03", "eval_id": "monnext_skip_0165", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":12},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":41,\"tds\":10},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":53,\"tds\":11},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":77,\"tds\":23}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery-Modified", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":17,\"tds\":16},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":30,\"tds\":12},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":41,\"tds\":10},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":53,\"tds\":11},{\"notes\":[\"Incubate at room temperature for 20 min.\"],\"step\":\"5\",\"tas\":77,\"tds\":23}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 17, "tds": 16 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 30, "tds": 12 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 41, "tds": 10 }, { "notes": [ "Mix well." ], "step": "4", "tas": 53, "tds": 11 }, { "notes": [ "Incubate at room temperature for 20 min." ], "step": "5", "tas": 77, "tds": 23 } ], "on": "7", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 6: Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 113.05, "video_path": "videos640/DJI_03.mp4", "video_start": 100.95, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_63", "eval_id": "monnext_clean_0166", "history_variant": "clean", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um syringe filter\",\"1.5 ml microcentrifuge tubes\",\"micropipette\",\"pipette tips\",\"6-well plate Contains producer cells\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":7,\"tds\":7}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, passing it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um syringe filter\",\"1.5 ml microcentrifuge tubes\",\"micropipette\",\"pipette tips\",\"6-well plate Contains producer cells\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":7,\"tds\":7}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, passing it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um syringe filter", "1.5 ml microcentrifuge tubes", "micropipette", "pipette tips", "6-well plate Contains producer cells" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 7, "tds": 7 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, passing it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 32.8, "video_path": "videos640/DJI_63.mp4", "video_start": 15.2, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_63", "eval_id": "monnext_skip_0166", "history_variant": "skipped_last_step", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um syringe filter\",\"1.5 ml microcentrifuge tubes\",\"micropipette\",\"pipette tips\",\"6-well plate Contains producer cells\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, passing it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um syringe filter\",\"1.5 ml microcentrifuge tubes\",\"micropipette\",\"pipette tips\",\"6-well plate Contains producer cells\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, passing it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um syringe filter", "1.5 ml microcentrifuge tubes", "micropipette", "pipette tips", "6-well plate Contains producer cells" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, passing it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 32.8, "video_path": "videos640/DJI_63.mp4", "video_start": 15.2, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_14", "eval_id": "monnext_clean_0167", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "Micropipette", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2.1", "target_delta": { "current_step": "2.1", "errors": [], "new_notes": [ { "note": "10 µL DNA sample", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2.1", "target_visible_step_ids": [ "2.1" ], "task_type": "monitor_next_step_delta", "video_end": 12.75, "video_path": "videos640/XM_14.mp4", "video_start": 7.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_14", "eval_id": "monnext_skip_0167", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "Micropipette", "Ice bucket Green container with ice" ], "history": [], "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2.1", "target_delta": { "current_step": "2.1", "errors": [ { "description": "The state is missing previously completed step 1: Thaw DNA samples on ice if frozen.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "10 µL DNA sample", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2.1", "target_visible_step_ids": [ "2.1" ], "task_type": "monitor_next_step_delta", "video_end": 12.75, "video_path": "videos640/XM_14.mp4", "video_start": 7.25, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_49", "eval_id": "monnext_clean_0168", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":17,\"tds\":17}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":17,\"tds\":17}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂)." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 17, "tds": 17 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 27.075, "video_path": "videos640/DJI_49.mp4", "video_start": 19.925, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_49", "eval_id": "monnext_skip_0168", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂)." ], "history": [], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 27.075, "video_path": "videos640/DJI_49.mp4", "video_start": 19.925, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_22", "eval_id": "monnext_clean_0169", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 26.0, "video_path": "videos640/XM_22.mp4", "video_start": 18.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_22", "eval_id": "monnext_skip_0169", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 } ], "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 }, { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 26.0, "video_path": "videos640/XM_22.mp4", "video_start": 18.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_56", "eval_id": "monnext_clean_0170", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 83, "tds": 83 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 83, "tds": 83 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add the transfection mix dropwise to the HEK293T cells.", "t": 0.0 }, { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 128.0, "video_path": "videos640/DJI_56.mp4", "video_start": 120.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_56", "eval_id": "monnext_skip_0170", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 83, "tds": 83 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the transfection mix dropwise to the HEK293T cells.", "t": 0.0 }, { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 128.0, "video_path": "videos640/DJI_56.mp4", "video_start": 120.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_17", "eval_id": "monnext_clean_0171", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":1,\"tds\":1},{\"notes\":[\"In a sterile microtube, mix:\"],\"step\":\"2\",\"tas\":29,\"tds\":28}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":1,\"tds\":1},{\"notes\":[\"In a sterile microtube, mix:\"],\"step\":\"2\",\"tas\":29,\"tds\":28}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Used to run the E-gel electrophoresis.", "pipette", "ice bucket Green container holding samples on ice." ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 1, "tds": 1 }, { "notes": [ "In a sterile microtube, mix:" ], "step": "2", "tas": 29, "tds": 28 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "3" ], "task_type": "monitor_next_step_delta", "video_end": 49.25, "video_path": "videos640/XM_17.mp4", "video_start": 43.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_17", "eval_id": "monnext_skip_0171", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":1,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":1,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Used to run the E-gel electrophoresis.", "pipette", "ice bucket Green container holding samples on ice." ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 1, "tds": 1 } ], "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile microtube, mix:", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "3" ], "task_type": "monitor_next_step_delta", "video_end": 49.25, "video_path": "videos640/XM_17.mp4", "video_start": 43.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_08_LT", "eval_id": "monnext_clean_0172", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27},{\"notes\":[\"Gently pull the comb straight upward out of the gel\"],\"step\":\"2\",\"tas\":308,\"tds\":32}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27},{\"notes\":[\"Gently pull the comb straight upward out of the gel\"],\"step\":\"2\",\"tas\":308,\"tds\":32}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder" ], "step": "1", "tas": 27, "tds": 27 }, { "notes": [ "Gently pull the comb straight upward out of the gel" ], "step": "2", "tas": 308, "tds": 32 } ], "on": "3", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 392.0, "video_path": "videos640/MV_03_08_LT.mp4", "video_start": 374.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_08_LT", "eval_id": "monnext_skip_0172", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder" ], "step": "1", "tas": 27, "tds": 27 } ], "on": "3", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Gently pull the comb straight upward out of the gel", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 392.0, "video_path": "videos640/MV_03_08_LT.mp4", "video_start": 374.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_02", "eval_id": "monnext_clean_0173", "history_variant": "clean", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":24,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":24,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 18, "tds": 9 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 24, "tds": 6 } ], "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add template DNA (in the tube labeled T).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 30.975, "video_path": "videos640/XM_02.mp4", "video_start": 26.025, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_02", "eval_id": "monnext_skip_0173", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 18, "tds": 9 } ], "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add Reverse Primer (in the tube labeled R).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add template DNA (in the tube labeled T).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 30.975, "video_path": "videos640/XM_02.mp4", "video_start": 26.025, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_28", "eval_id": "monnext_clean_0174", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":69,\"tds\":7},{\"notes\":[\"Program the cycler or load pre-configured program:\"],\"step\":\"9\",\"tas\":73,\"tds\":4}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":69,\"tds\":7},{\"notes\":[\"Program the cycler or load pre-configured program:\"],\"step\":\"9\",\"tas\":73,\"tds\":4}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 62, "tds": 16 }, { "notes": [ "Place the tube into the thermocycler." ], "step": "8", "tas": 69, "tds": 7 }, { "notes": [ "Program the cycler or load pre-configured program:" ], "step": "9", "tas": 73, "tds": 4 } ], "on": "10", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "10", "target_delta": { "current_step": "10", "errors": [], "new_notes": [ { "note": "Start the program.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "10", "target_visible_step_ids": [ "10" ], "task_type": "monitor_next_step_delta", "video_end": 76.875, "video_path": "videos640/DJI_28.mp4", "video_start": 74.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_28", "eval_id": "monnext_skip_0174", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":69,\"tds\":7}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":62,\"tds\":16},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":69,\"tds\":7}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 62, "tds": 16 }, { "notes": [ "Place the tube into the thermocycler." ], "step": "8", "tas": 69, "tds": 7 } ], "on": "10", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "10", "target_delta": { "current_step": "10", "errors": [ { "description": "The state is missing previously completed step 9: Program the cycler or load pre-configured program:", "error_type": "step_skipped", "step_ref": "9", "t": 0.0 } ], "new_notes": [ { "note": "Start the program.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 9 was completed before continuing." }, "target_error_step_id": "9", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "10", "target_visible_step_ids": [ "10" ], "task_type": "monitor_next_step_delta", "video_end": 76.875, "video_path": "videos640/DJI_28.mp4", "video_start": 74.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_03_05_TD", "eval_id": "monnext_clean_0175", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear" ], "step": "1", "tas": 223, "tds": 223 }, { "notes": [ "Allow flask to cool on the benchtop to approximately 55°C" ], "step": "2", "tas": 226, "tds": 3 } ], "on": "3", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 569.5, "video_path": "videos640/MV_03_05_TD.mp4", "video_start": 551.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_05_TD", "eval_id": "monnext_skip_0175", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear" ], "step": "1", "tas": 223, "tds": 223 } ], "on": "3", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Allow flask to cool on the benchtop to approximately 55°C", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 569.5, "video_path": "videos640/MV_03_05_TD.mp4", "video_start": 551.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_34", "eval_id": "monnext_clean_0176", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":113,\"tds\":73},{\"notes\":[\"Add the transfection mi x dropwise to the HEK293T cells.\"],\"step\":\"5\",\"tas\":150,\"tds\":24}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":113,\"tds\":73},{\"notes\":[\"Add the transfection mi x dropwise to the HEK293T cells.\"],\"step\":\"5\",\"tas\":150,\"tds\":24}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.", "1.5 mL tube Sterile microcentrifuge tube", "pipette Adjustable volume pipettes", "vortex mixer Used to mix plasmid and reagent solutions", "CO2 incubator For cell culture incubation", "6-well plate Observed in video as the cell culture vessel" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 113, "tds": 113 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 113, "tds": 73 }, { "notes": [ "Add the transfection mi x dropwise to the HEK293T cells." ], "step": "5", "tas": 150, "tds": 24 } ], "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 }, { "note": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 160.0, "video_path": "videos640/XM_34.mp4", "video_start": 154.2, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_34", "eval_id": "monnext_skip_0176", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":113,\"tds\":73}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":113,\"tds\":73}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.", "1.5 mL tube Sterile microcentrifuge tube", "pipette Adjustable volume pipettes", "vortex mixer Used to mix plasmid and reagent solutions", "CO2 incubator For cell culture incubation", "6-well plate Observed in video as the cell culture vessel" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 113, "tds": 113 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 113, "tds": 73 } ], "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add the transfection mi x dropwise to the HEK293T cells.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 }, { "note": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 160.0, "video_path": "videos640/XM_34.mp4", "video_start": 154.2, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_30", "eval_id": "monnext_clean_0177", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":15},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":77,\"tds\":6}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":15},{\"notes\":[\"Place the tube into the thermocycler.\"],\"step\":\"8\",\"tas\":77,\"tds\":6}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 44, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 54, "tds": 9 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 70, "tds": 15 }, { "notes": [ "Place the tube into the thermocycler." ], "step": "8", "tas": 77, "tds": 6 } ], "on": "9", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 81.875, "video_path": "videos640/DJI_30.mp4", "video_start": 79.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_30", "eval_id": "monnext_skip_0177", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":15}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":11,\"tds\":9},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":23,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":33,\"tds\":9},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":44,\"tds\":10},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":54,\"tds\":9},{\"notes\":[\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\"],\"step\":\"7\",\"tas\":70,\"tds\":15}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 11, "tds": 9 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 23, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 33, "tds": 9 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 44, "tds": 10 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 54, "tds": 9 }, { "notes": [ "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom." ], "step": "7", "tas": 70, "tds": 15 } ], "on": "9", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 8: Place the tube into the thermocycler.", "error_type": "step_skipped", "step_ref": "8", "t": 0.0 } ], "new_notes": [ { "note": "Program the cycler or load pre-configured program:", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 8 was completed before continuing." }, "target_error_step_id": "8", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 81.875, "video_path": "videos640/DJI_30.mp4", "video_start": 79.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_42", "eval_id": "monnext_clean_0178", "history_variant": "clean", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "notes": [ "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:" ], "step": "2", "tas": 21, "tds": 17 }, { "notes": [ "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:" ], "step": "3", "tas": 72, "tds": 34 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "t": 0.0 }, { "note": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 116.0, "video_path": "videos640/XM_42.mp4", "video_start": 108.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_42", "eval_id": "monnext_skip_0178", "history_variant": "skipped_last_step", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "notes": [ "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:" ], "step": "2", "tas": 21, "tds": 17 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "t": 0.0 }, { "note": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 116.0, "video_path": "videos640/XM_42.mp4", "video_start": 108.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_18", "eval_id": "monnext_clean_0179", "history_variant": "clean", "operation": "Transformation (correct) replicate 1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":50,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":50,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for transferring DNA and culture.", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 32, "tds": 4 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 38, "tds": 6 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 50, "tds": 12 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 }, { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 62.0, "video_path": "videos640/DJI_18.mp4", "video_start": 54.4, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_18", "eval_id": "monnext_skip_0179", "history_variant": "skipped_last_step", "operation": "Transformation (correct) replicate 1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for transferring DNA and culture.\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":32,\"tds\":4},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":38,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for transferring DNA and culture.", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 32, "tds": 4 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 38, "tds": 6 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 }, { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 62.0, "video_path": "videos640/DJI_18.mp4", "video_start": 54.4, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_51", "eval_id": "monnext_clean_0180", "history_variant": "clean", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 Reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "notes": [ "16 μL sterile H₂O" ], "step": "2.1", "tas": 14, "tds": 7 }, { "notes": [ "2 μL Forward Primer (from 100 μM stock)" ], "step": "2.2", "tas": 22, "tds": 7 } ], "on": "3.1", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3.1", "target_delta": { "current_step": "3.1", "errors": [], "new_notes": [ { "note": "24 μL sterile H₂O", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3.1", "target_visible_step_ids": [ "3.1" ], "task_type": "monitor_next_step_delta", "video_end": 47.975, "video_path": "videos640/DJI_51.mp4", "video_start": 43.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_51", "eval_id": "monnext_skip_0180", "history_variant": "skipped_last_step", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 Reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7}],\"on\":\"3.1\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "notes": [ "16 μL sterile H₂O" ], "step": "2.1", "tas": 14, "tds": 7 } ], "on": "3.1", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3.1", "target_delta": { "current_step": "3.1", "errors": [ { "description": "The state is missing previously completed step 2.2: 2 μL Forward Primer (from 100 μM stock)", "error_type": "step_skipped", "step_ref": "2.2", "t": 0.0 } ], "new_notes": [ { "note": "24 μL sterile H₂O", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.2 was completed before continuing." }, "target_error_step_id": "2.2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3.1", "target_visible_step_ids": [ "3.1" ], "task_type": "monitor_next_step_delta", "video_end": 47.975, "video_path": "videos640/DJI_51.mp4", "video_start": 43.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_02", "eval_id": "monnext_clean_0181", "history_variant": "clean", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":24,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9},{\"notes\":[\"Add Reverse Primer (in the tube labeled R).\"],\"step\":\"3\",\"tas\":24,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 18, "tds": 9 }, { "notes": [ "Add Reverse Primer (in the tube labeled R)." ], "step": "3", "tas": 24, "tds": 6 } ], "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add template DNA (in the tube labeled T).", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 37.0, "video_path": "videos640/XM_02.mp4", "video_start": 29.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_02", "eval_id": "monnext_skip_0181", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9},{\"notes\":[\"Add Forward Primer (in the tube labeled F).\"],\"step\":\"2\",\"tas\":18,\"tds\":9}],\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 }, { "notes": [ "Add Forward Primer (in the tube labeled F)." ], "step": "2", "tas": 18, "tds": 9 } ], "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add Reverse Primer (in the tube labeled R).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add template DNA (in the tube labeled T).", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 37.0, "video_path": "videos640/XM_02.mp4", "video_start": 29.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_10", "eval_id": "monnext_clean_0182", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":12,\"tds\":11},{\"notes\":[\"Add 10 µL of DNA ladder into a separate well.\"],\"step\":\"3\",\"tas\":23,\"tds\":10}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":12,\"tds\":11},{\"notes\":[\"Add 10 µL of DNA ladder into a separate well.\"],\"step\":\"3\",\"tas\":23,\"tds\":10}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 12, "tds": 11 }, { "notes": [ "Add 10 µL of DNA ladder into a separate well." ], "step": "3", "tas": 23, "tds": 10 } ], "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 30.2, "video_path": "videos640/XM_10.mp4", "video_start": 25.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_10", "eval_id": "monnext_skip_0182", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":12,\"tds\":11}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":12,\"tds\":11}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 12, "tds": 11 } ], "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an E-gel cassette into a power base, loading DNA samples and ladders into the wells, and initiating electrophoresis.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [ { "description": "The state is missing previously completed step 3: Add 10 µL of DNA ladder into a separate well.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 30.2, "video_path": "videos640/XM_10.mp4", "video_start": 25.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0183", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29},{\"notes\":[\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\"],\"step\":\"14\",\"tas\":182,\"tds\":9}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29},{\"notes\":[\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\"],\"step\":\"14\",\"tas\":182,\"tds\":9}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 }, { "notes": [ "Incubate at 37°C for 1 minutes" ], "step": "10", "tas": 114, "tds": 10 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "11", "tas": 142, "tds": 13 }, { "notes": [ "Add 5ml complete medium to dish" ], "step": "12", "tas": 172, "tds": 29 }, { "notes": [ "Transfer entire 6ml cell suspension to sterile 50ml conical tube" ], "step": "14", "tas": 182, "tds": 9 } ], "on": "16", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "17", "target_delta": { "current_step": "17", "errors": [], "new_notes": [ { "note": "Add 5ml cell suspension to new 10cm dish", "t": 0.0 }, { "note": "Add 5ml fresh medium (total 10ml in dish)", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "16", "target_visible_step_ids": [ "16", "17" ], "task_type": "monitor_next_step_delta", "video_end": 205.0, "video_path": "videos640/DJI_07.mp4", "video_start": 197.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0183", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13},{\"notes\":[\"Add 5ml complete medium to dish\"],\"step\":\"12\",\"tas\":172,\"tds\":29}],\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 }, { "notes": [ "Incubate at 37°C for 1 minutes" ], "step": "10", "tas": 114, "tds": 10 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "11", "tas": 142, "tds": 13 }, { "notes": [ "Add 5ml complete medium to dish" ], "step": "12", "tas": 172, "tds": 29 } ], "on": "16", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "17", "target_delta": { "current_step": "17", "errors": [ { "description": "The state is missing previously completed step 14: Transfer entire 6ml cell suspension to sterile 50ml conical tube", "error_type": "step_skipped", "step_ref": "14", "t": 0.0 } ], "new_notes": [ { "note": "Add 5ml cell suspension to new 10cm dish", "t": 0.0 }, { "note": "Add 5ml fresh medium (total 10ml in dish)", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 14 was completed before continuing." }, "target_error_step_id": "14", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "16", "target_visible_step_ids": [ "16", "17" ], "task_type": "monitor_next_step_delta", "video_end": 205.0, "video_path": "videos640/DJI_07.mp4", "video_start": 197.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_28", "eval_id": "monnext_clean_0184", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":46,\"tds\":46}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 46, "tds": 46 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 58.4, "video_path": "videos640/DJI_28.mp4", "video_start": 49.6, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_28", "eval_id": "monnext_skip_0184", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 58.4, "video_path": "videos640/DJI_28.mp4", "video_start": 49.6, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_44", "eval_id": "monnext_clean_0185", "history_variant": "clean", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41},{\"notes\":[\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\"],\"step\":\"6\",\"tas\":218,\"tds\":25}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 }, { "notes": [ "Add 2 µL QuickExtract lysate as the DNA template." ], "step": "5", "tas": 174, "tds": 41 }, { "notes": [ "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL." ], "step": "6", "tas": 218, "tds": 25 } ], "on": "7", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "t": 0.0 }, { "note": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 262.6, "video_path": "videos640/XM_44.mp4", "video_start": 255.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_44", "eval_id": "monnext_skip_0185", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64},{\"notes\":[\"Add 2 µL QuickExtract lysate as the DNA template.\"],\"step\":\"5\",\"tas\":174,\"tds\":41}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 }, { "notes": [ "Add 2 µL QuickExtract lysate as the DNA template." ], "step": "5", "tas": 174, "tds": 41 } ], "on": "7", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 6: Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "t": 0.0 }, { "note": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 262.6, "video_path": "videos640/XM_44.mp4", "video_start": 255.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_08", "eval_id": "monnext_clean_0186", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":44,\"tds\":7}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 44, "tds": 7 } ], "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Place dish in biosafety cabinet", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 51.5, "video_path": "videos640/DJI_08.mp4", "video_start": 49.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_08", "eval_id": "monnext_skip_0186", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":6,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":22,\"tds\":15}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 6, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 22, "tds": 15 } ], "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Remove 10cm dish from incubator", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Place dish in biosafety cabinet", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 51.5, "video_path": "videos640/DJI_08.mp4", "video_start": 49.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_61", "eval_id": "monnext_clean_0187", "history_variant": "clean", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes Used for aliquoting\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":14,\"tds\":14}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes Used for aliquoting\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":14,\"tds\":14}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes Used for aliquoting", "pipette" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 14, "tds": 14 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 48.0, "video_path": "videos640/DJI_61.mp4", "video_start": 30.0, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_61", "eval_id": "monnext_skip_0187", "history_variant": "skipped_last_step", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes Used for aliquoting\",\"pipette\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes Used for aliquoting\",\"pipette\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes Used for aliquoting", "pipette" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 48.0, "video_path": "videos640/DJI_61.mp4", "video_start": 30.0, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_clean_0188", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Mix well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 75.85, "video_path": "videos640/DJI_09.mp4", "video_start": 68.15, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_skip_0188", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add reagent 3 into the EP tube.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Mix well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 75.85, "video_path": "videos640/DJI_09.mp4", "video_start": 68.15, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_12", "eval_id": "monnext_clean_0189", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"10 cm dish contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":33,\"tds\":33}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"10 cm dish contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":33,\"tds\":33}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube sterile", "pipette", "10 cm dish contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 33, "tds": 33 } ], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 }, { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 59.0, "video_path": "videos640/DJI_12.mp4", "video_start": 51.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_12", "eval_id": "monnext_skip_0189", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"10 cm dish contains 293T cells\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"10 cm dish contains 293T cells\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube sterile", "pipette", "10 cm dish contains 293T cells" ], "history": [], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Add reagent 1 into a sterile 1.5 mL EP tube.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 }, { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 59.0, "video_path": "videos640/DJI_12.mp4", "video_start": 51.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_27", "eval_id": "monnext_clean_0190", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":48,\"tds\":48}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":48,\"tds\":48}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume micropipette", "Pipette tips Disposable plastic tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice for reagent stability", "Microcentrifuge Small benchtop centrifuge for quick spins", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 48, "tds": 48 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 74.15, "video_path": "videos640/DJI_27.mp4", "video_start": 67.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_27", "eval_id": "monnext_skip_0190", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Adjustable volume micropipette", "Pipette tips Disposable plastic tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice for reagent stability", "Microcentrifuge Small benchtop centrifuge for quick spins", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 74.15, "video_path": "videos640/DJI_27.mp4", "video_start": 67.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_04_RF", "eval_id": "monnext_clean_0191", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Sterilize reagents before placing in hood using ethanol\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Sterilize reagents before placing in hood using ethanol\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Sterilize reagents before placing in hood using ethanol" ], "step": "1", "tas": 13, "tds": 13 } ], "on": "2", "protocol": [ { "desc": "Sterilize reagents before placing in hood using ethanol", "order": 1, "step": "1" }, { "desc": "Place sterile 15mL EP tube in hood", "order": 2, "step": "2" }, { "desc": "Place sterile flask/plate in hood", "order": 3, "step": "3" }, { "desc": "Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Place sterile 15mL EP tube in hood", "t": 0.0 }, { "note": "Place sterile flask/plate in hood", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 36.0, "video_path": "videos640/MV_01_04_RF.mp4", "video_start": 28.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_04_RF", "eval_id": "monnext_skip_0191", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Sterilize reagents before placing in hood using ethanol", "order": 1, "step": "1" }, { "desc": "Place sterile 15mL EP tube in hood", "order": 2, "step": "2" }, { "desc": "Place sterile flask/plate in hood", "order": 3, "step": "3" }, { "desc": "Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Sterilize reagents before placing in hood using ethanol", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Place sterile 15mL EP tube in hood", "t": 0.0 }, { "note": "Place sterile flask/plate in hood", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 36.0, "video_path": "videos640/MV_01_04_RF.mp4", "video_start": 28.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "XM_08", "eval_id": "monnext_clean_0192", "history_variant": "clean", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"notes\":[\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\"],\"step\":\"1\",\"tas\":6,\"tds\":5}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "notes": [ "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4." ], "step": "1", "tas": 6, "tds": 5 } ], "on": "2", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 24.075, "video_path": "videos640/XM_08.mp4", "video_start": 16.925, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_08", "eval_id": "monnext_skip_0192", "history_variant": "skipped_last_step", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Serial Dilution Preparation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [], "on": "2", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 24.075, "video_path": "videos640/XM_08.mp4", "video_start": 16.925, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "MV_03_08_TD", "eval_id": "monnext_clean_0193", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\"],\"step\":\"1\",\"tas\":27,\"tds\":27}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder" ], "step": "1", "tas": 27, "tds": 27 } ], "on": "2", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Gently pull the comb straight upward out of the gel", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 300.8, "video_path": "videos640/MV_03_08_TD.mp4", "video_start": 283.2, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_08_TD", "eval_id": "monnext_skip_0193", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Gently pull the comb straight upward out of the gel", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 300.8, "video_path": "videos640/MV_03_08_TD.mp4", "video_start": 283.2, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_14", "eval_id": "monnext_clean_0194", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":25,\"tds\":9},{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"3\",\"tas\":28,\"tds\":2},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":37,\"tds\":8}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":25,\"tds\":9},{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"3\",\"tas\":28,\"tds\":2},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":37,\"tds\":8}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "Micropipette", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 25, "tds": 9 }, { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "3", "tas": 28, "tds": 2 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 37, "tds": 8 } ], "on": "6", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 43.65, "video_path": "videos640/XM_14.mp4", "video_start": 40.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_14", "eval_id": "monnext_skip_0194", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":25,\"tds\":9},{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"3\",\"tas\":28,\"tds\":2}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":25,\"tds\":9},{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"3\",\"tas\":28,\"tds\":2}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "Micropipette", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 25, "tds": 9 }, { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "3", "tas": 28, "tds": 2 } ], "on": "6", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Load 10–20 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 43.65, "video_path": "videos640/XM_14.mp4", "video_start": 40.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "MV_01_08_HD", "eval_id": "monnext_clean_0195", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11},{\"notes\":[\"Dispense media into flask\"],\"step\":\"2\",\"tas\":26,\"tds\":15},{\"notes\":[\"Dispose of 5mL pipet tip\"],\"step\":\"3\",\"tas\":32,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11},{\"notes\":[\"Dispense media into flask\"],\"step\":\"2\",\"tas\":26,\"tds\":15},{\"notes\":[\"Dispose of 5mL pipet tip\"],\"step\":\"3\",\"tas\":32,\"tds\":6}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man" ], "step": "1", "tas": 11, "tds": 11 }, { "notes": [ "Dispense media into flask" ], "step": "2", "tas": 26, "tds": 15 }, { "notes": [ "Dispose of 5mL pipet tip" ], "step": "3", "tas": 32, "tds": 6 } ], "on": "4", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Place flask in incubator to warm up to 37c", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 45.175, "video_path": "videos640/MV_01_08_HD.mp4", "video_start": 35.825, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_01_08_HD", "eval_id": "monnext_skip_0195", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11},{\"notes\":[\"Dispense media into flask\"],\"step\":\"2\",\"tas\":26,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\"],\"step\":\"1\",\"tas\":11,\"tds\":11},{\"notes\":[\"Dispense media into flask\"],\"step\":\"2\",\"tas\":26,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man" ], "step": "1", "tas": 11, "tds": 11 }, { "notes": [ "Dispense media into flask" ], "step": "2", "tas": 26, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Dispose of 5mL pipet tip", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Place flask in incubator to warm up to 37c", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 45.175, "video_path": "videos640/MV_01_08_HD.mp4", "video_start": 35.825, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_02_35_BL", "eval_id": "monnext_clean_0196", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve spin column from centrifuge to rack\"],\"step\":\"2\",\"tas\":36,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve spin column from centrifuge to rack\"],\"step\":\"2\",\"tas\":36,\"tds\":6}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve spin column from centrifuge to rack" ], "step": "2", "tas": 36, "tds": 6 } ], "on": "3", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Discard flowthrough to appropriate waste container", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 53.05, "video_path": "videos640/MV_02_35_BL.mp4", "video_start": 40.95, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_02_35_BL", "eval_id": "monnext_skip_0196", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "3", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Retrieve spin column from centrifuge to rack", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Discard flowthrough to appropriate waste container", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 53.05, "video_path": "videos640/MV_02_35_BL.mp4", "video_start": 40.95, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_35", "eval_id": "monnext_clean_0197", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 84, "tds": 19 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 100.725, "video_path": "videos640/XM_35.mp4", "video_start": 90.275, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_35", "eval_id": "monnext_skip_0197", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1" ], "task_type": "monitor_next_step_delta", "video_end": 100.725, "video_path": "videos640/XM_35.mp4", "video_start": 90.275, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_14", "eval_id": "monnext_clean_0198", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"pipette tips\",\"10 cm dish containing 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\",\"293T cells In a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"pipette tips\",\"10 cm dish containing 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":11,\"tds\":11}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\",\"293T cells In a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube sterile", "pipette", "pipette tips", "10 cm dish containing 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 11, "tds": 11 } ], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3", "293T cells In a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 23.625, "video_path": "videos640/DJI_14.mp4", "video_start": 15.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_14", "eval_id": "monnext_skip_0198", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"pipette tips\",\"10 cm dish containing 293T cells\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\",\"293T cells In a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"pipette tips\",\"10 cm dish containing 293T cells\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\",\"293T cells In a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube sterile", "pipette", "pipette tips", "10 cm dish containing 293T cells" ], "history": [], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3", "293T cells In a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Add reagent 1 into a sterile 1.5 mL EP tube.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 23.625, "video_path": "videos640/DJI_14.mp4", "video_start": 15.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_11", "eval_id": "monnext_clean_0199", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 34.85, "video_path": "videos640/DJI_11.mp4", "video_start": 27.15, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_11", "eval_id": "monnext_skip_0199", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 } ], "on": "3", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Add reagent 2 into the EP tube.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 34.85, "video_path": "videos640/DJI_11.mp4", "video_start": 27.15, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_10", "eval_id": "monnext_clean_0200", "history_variant": "clean", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":20,\"tds\":20}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 20, "tds": 20 } ], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 }, { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 38.0, "video_path": "videos640/DJI_10.mp4", "video_start": 30.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_10", "eval_id": "monnext_skip_0200", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [], "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Add reagent 1 into a sterile 1.5 mL EP tube.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add reagent 2 into the EP tube.", "t": 0.0 }, { "note": "Add reagent 3 into the EP tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 38.0, "video_path": "videos640/DJI_10.mp4", "video_start": 30.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_03_05_TD", "eval_id": "monnext_clean_0201", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3},{\"notes\":[\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\"],\"step\":\"3\",\"tas\":589,\"tds\":57}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3},{\"notes\":[\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\"],\"step\":\"3\",\"tas\":589,\"tds\":57}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear" ], "step": "1", "tas": 223, "tds": 223 }, { "notes": [ "Allow flask to cool on the benchtop to approximately 55°C" ], "step": "2", "tas": 226, "tds": 3 }, { "notes": [ "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose" ], "step": "3", "tas": 589, "tds": 57 } ], "on": "4", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Acquire DNA Dye and buffer and place on ice", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 674.5, "video_path": "videos640/MV_03_05_TD.mp4", "video_start": 656.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_05_TD", "eval_id": "monnext_skip_0201", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\"],\"step\":\"1\",\"tas\":223,\"tds\":223},{\"notes\":[\"Allow flask to cool on the benchtop to approximately 55°C\"],\"step\":\"2\",\"tas\":226,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear" ], "step": "1", "tas": 223, "tds": 223 }, { "notes": [ "Allow flask to cool on the benchtop to approximately 55°C" ], "step": "2", "tas": 226, "tds": 3 } ], "on": "4", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Acquire DNA Dye and buffer and place on ice", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 674.5, "video_path": "videos640/MV_03_05_TD.mp4", "video_start": 656.5, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "XM_20", "eval_id": "monnext_clean_0202", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":35,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":48,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":35,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":48,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 35, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 48, "tds": 12 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 69.7, "video_path": "videos640/XM_20.mp4", "video_start": 63.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_20", "eval_id": "monnext_skip_0202", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":35,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":35,\"tds\":10}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 35, "tds": 10 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 4: Add 1 μL of Reverse Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 69.7, "video_path": "videos640/XM_20.mp4", "video_start": 63.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_32", "eval_id": "monnext_clean_0203", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":39,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":39,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 31, "tds": 15 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 39, "tds": 6 } ], "on": "5", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "3" ], "task_type": "monitor_next_step_delta", "video_end": 46.25, "video_path": "videos640/DJI_32.mp4", "video_start": 42.65, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_32", "eval_id": "monnext_skip_0203", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"notes\":[\"2 µL 6× E-gel loading buffer\"],\"step\":\"2.2\",\"tas\":31,\"tds\":15}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 }, { "notes": [ "2 µL 6× E-gel loading buffer" ], "step": "2.2", "tas": 31, "tds": 15 } ], "on": "5", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 4: Load 10–20 µL of the prepared DNA sample into a well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "t": 0.0 }, { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "3" ], "task_type": "monitor_next_step_delta", "video_end": 46.25, "video_path": "videos640/DJI_32.mp4", "video_start": 42.65, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_29", "eval_id": "monnext_clean_0204", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":36,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":36,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 12 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 24, "tds": 12 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 36, "tds": 12 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 44.525, "video_path": "videos640/DJI_29.mp4", "video_start": 38.475, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_29", "eval_id": "monnext_skip_0204", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":12},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":24,\"tds\":12}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 12 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 24, "tds": 12 } ], "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add 1 μL of Reverse Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 44.525, "video_path": "videos640/DJI_29.mp4", "video_start": 38.475, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_28", "eval_id": "monnext_clean_0205", "history_variant": "clean", "operation": "Freeze_Cells_Right_1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"notes\":[\"Aspirate culture medium from the petri dish.\"],\"step\":\"1.1\",\"tas\":22,\"tds\":22},{\"notes\":[\"Add PBS wash buffer to the dish.\"],\"step\":\"1.2\",\"tas\":39,\"tds\":16},{\"notes\":[\"Swirl the dish to wash the cell monolayer.\"],\"step\":\"1.3\",\"tas\":49,\"tds\":9}],\"on\":\"1.4\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Harvesting by Trypsinization", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"notes\":[\"Aspirate culture medium from the petri dish.\"],\"step\":\"1.1\",\"tas\":22,\"tds\":22},{\"notes\":[\"Add PBS wash buffer to the dish.\"],\"step\":\"1.2\",\"tas\":39,\"tds\":16},{\"notes\":[\"Swirl the dish to wash the cell monolayer.\"],\"step\":\"1.3\",\"tas\":49,\"tds\":9}],\"on\":\"1.4\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Petri dish Contains the cell culture", "Serological pipette Used for aspirating medium", "Micropipette Eppendorf brand used for adding reagents", "Centrifuge tube Used for collecting harvested cells", "Tube rack Blue rack holding reagent tubes" ], "history": [ { "notes": [ "Aspirate culture medium from the petri dish." ], "step": "1.1", "tas": 22, "tds": 22 }, { "notes": [ "Add PBS wash buffer to the dish." ], "step": "1.2", "tas": 39, "tds": 16 }, { "notes": [ "Swirl the dish to wash the cell monolayer." ], "step": "1.3", "tas": 49, "tds": 9 } ], "on": "1.4", "protocol": [ { "desc": "Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.", "order": 1, "step": "1" }, { "desc": "Aspirate culture medium from the petri dish.", "order": 2, "step": "1.1" }, { "desc": "Add PBS wash buffer to the dish.", "order": 3, "step": "1.2" }, { "desc": "Swirl the dish to wash the cell monolayer.", "order": 4, "step": "1.3" }, { "desc": "Add trypsin solution to the dish to detach cells.", "order": 5, "step": "1.4" }, { "desc": "Collect the cell suspension into a centrifuge tube.", "order": 6, "step": "1.5" } ], "protocol_summary": "The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.", "reagents": [ "Culture medium Pink liquid in the petri dish", "PBS Visible in a tube labeled 'PBS 2X'", "Trypsin Visible in a tube labeled 'Tryp'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1.5", "target_delta": { "current_step": "1.5", "errors": [], "new_notes": [ { "note": "Add trypsin solution to the dish to detach cells.", "t": 0.0 }, { "note": "Collect the cell suspension into a centrifuge tube.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1.4", "target_visible_step_ids": [ "1.4", "1.5" ], "task_type": "monitor_next_step_delta", "video_end": 74.8, "video_path": "videos640/XM_28.mp4", "video_start": 69.4, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_28", "eval_id": "monnext_skip_0205", "history_variant": "skipped_last_step", "operation": "Freeze_Cells_Right_1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"notes\":[\"Aspirate culture medium from the petri dish.\"],\"step\":\"1.1\",\"tas\":22,\"tds\":22},{\"notes\":[\"Add PBS wash buffer to the dish.\"],\"step\":\"1.2\",\"tas\":39,\"tds\":16}],\"on\":\"1.4\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Harvesting by Trypsinization", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"notes\":[\"Aspirate culture medium from the petri dish.\"],\"step\":\"1.1\",\"tas\":22,\"tds\":22},{\"notes\":[\"Add PBS wash buffer to the dish.\"],\"step\":\"1.2\",\"tas\":39,\"tds\":16}],\"on\":\"1.4\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Petri dish Contains the cell culture", "Serological pipette Used for aspirating medium", "Micropipette Eppendorf brand used for adding reagents", "Centrifuge tube Used for collecting harvested cells", "Tube rack Blue rack holding reagent tubes" ], "history": [ { "notes": [ "Aspirate culture medium from the petri dish." ], "step": "1.1", "tas": 22, "tds": 22 }, { "notes": [ "Add PBS wash buffer to the dish." ], "step": "1.2", "tas": 39, "tds": 16 } ], "on": "1.4", "protocol": [ { "desc": "Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.", "order": 1, "step": "1" }, { "desc": "Aspirate culture medium from the petri dish.", "order": 2, "step": "1.1" }, { "desc": "Add PBS wash buffer to the dish.", "order": 3, "step": "1.2" }, { "desc": "Swirl the dish to wash the cell monolayer.", "order": 4, "step": "1.3" }, { "desc": "Add trypsin solution to the dish to detach cells.", "order": 5, "step": "1.4" }, { "desc": "Collect the cell suspension into a centrifuge tube.", "order": 6, "step": "1.5" } ], "protocol_summary": "The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.", "reagents": [ "Culture medium Pink liquid in the petri dish", "PBS Visible in a tube labeled 'PBS 2X'", "Trypsin Visible in a tube labeled 'Tryp'" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1.5", "target_delta": { "current_step": "1.5", "errors": [ { "description": "The state is missing previously completed step 1.3: Swirl the dish to wash the cell monolayer.", "error_type": "step_skipped", "step_ref": "1.3", "t": 0.0 } ], "new_notes": [ { "note": "Add trypsin solution to the dish to detach cells.", "t": 0.0 }, { "note": "Collect the cell suspension into a centrifuge tube.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1.3 was completed before continuing." }, "target_error_step_id": "1.3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1.4", "target_visible_step_ids": [ "1.4", "1.5" ], "task_type": "monitor_next_step_delta", "video_end": 74.8, "video_path": "videos640/XM_28.mp4", "video_start": 69.4, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_40", "eval_id": "monnext_clean_0206", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":34,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":34,\"tds\":16}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 14, "tds": 13 }, { "notes": [ "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection)." ], "step": "4", "tas": 34, "tds": 16 } ], "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 38.65, "video_path": "videos640/XM_40.mp4", "video_start": 35.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_40", "eval_id": "monnext_skip_0206", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":14,\"tds\":13}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 14, "tds": 13 } ], "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 38.65, "video_path": "videos640/XM_40.mp4", "video_start": 35.35, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "MV_02_15_BL", "eval_id": "monnext_clean_0207", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 0.350 mL of chilled Buffer N3\"],\"step\":\"1\",\"tas\":24,\"tds\":24},{\"notes\":[\"Mix immediately and thoroughly by vigorously inverting 4–6 times\"],\"step\":\"2\",\"tas\":39,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 0.350 mL of chilled Buffer N3\"],\"step\":\"1\",\"tas\":24,\"tds\":24},{\"notes\":[\"Mix immediately and thoroughly by vigorously inverting 4–6 times\"],\"step\":\"2\",\"tas\":39,\"tds\":15}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Add 0.350 mL of chilled Buffer N3" ], "step": "1", "tas": 24, "tds": 24 }, { "notes": [ "Mix immediately and thoroughly by vigorously inverting 4–6 times" ], "step": "2", "tas": 39, "tds": 15 } ], "on": "3", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Load sample into microcentrifuge", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 54.4, "video_path": "videos640/MV_02_15_BL.mp4", "video_start": 45.6, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_02_15_BL", "eval_id": "monnext_skip_0207", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 0.350 mL of chilled Buffer N3\"],\"step\":\"1\",\"tas\":24,\"tds\":24}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Add 0.350 mL of chilled Buffer N3\"],\"step\":\"1\",\"tas\":24,\"tds\":24}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Add 0.350 mL of chilled Buffer N3" ], "step": "1", "tas": 24, "tds": 24 } ], "on": "3", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Mix immediately and thoroughly by vigorously inverting 4–6 times", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Load sample into microcentrifuge", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 54.4, "video_path": "videos640/MV_02_15_BL.mp4", "video_start": 45.6, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_clean_0208", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":60,\"tds\":4}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":60,\"tds\":4}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 55, "tds": 9 }, { "notes": [ "Immediately return the tube to ice for 5 seconds." ], "step": "5", "tas": 60, "tds": 4 } ], "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 95.5, "video_path": "videos640/DJI_17.mp4", "video_start": 77.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_skip_0208", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 55, "tds": 9 } ], "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Immediately return the tube to ice for 5 seconds.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 95.5, "video_path": "videos640/DJI_17.mp4", "video_start": 77.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_26", "eval_id": "monnext_clean_0209", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 34, "tds": 15 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 42.75, "video_path": "videos640/DJI_26.mp4", "video_start": 37.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_26", "eval_id": "monnext_skip_0209", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 } ], "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add 1 μL of Forward Primer (10 μM stock).", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add 1 μL of Reverse Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 42.75, "video_path": "videos640/DJI_26.mp4", "video_start": 37.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_18", "eval_id": "monnext_clean_0210", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Used for reagent addition\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Bio-Rad T100 Thermal Cycler Used for the PCR reaction\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":7,\"tds\":7},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":18,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":24,\"tds\":6},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":35,\"tds\":11}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Used for reagent addition\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Bio-Rad T100 Thermal Cycler Used for the PCR reaction\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":7,\"tds\":7},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":18,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":24,\"tds\":6},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":35,\"tds\":11}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Used for reagent addition", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Bio-Rad T100 Thermal Cycler Used for the PCR reaction" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 7, "tds": 7 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 18, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 24, "tds": 6 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 35, "tds": 11 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 46.7, "video_path": "videos640/XM_18.mp4", "video_start": 40.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_18", "eval_id": "monnext_skip_0210", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipette Used for reagent addition\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Bio-Rad T100 Thermal Cycler Used for the PCR reaction\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":7,\"tds\":7},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":18,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":24,\"tds\":6}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipette Used for reagent addition\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Bio-Rad T100 Thermal Cycler Used for the PCR reaction\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":7,\"tds\":7},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":18,\"tds\":11},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":24,\"tds\":6}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipette Used for reagent addition", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Bio-Rad T100 Thermal Cycler Used for the PCR reaction" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 7, "tds": 7 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 18, "tds": 11 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 24, "tds": 6 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 46.7, "video_path": "videos640/XM_18.mp4", "video_start": 40.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_09", "eval_id": "monnext_clean_0211", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 79, "tds": 14 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 }, { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 94.0, "video_path": "videos640/DJI_09.mp4", "video_start": 86.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_09", "eval_id": "monnext_skip_0211", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 4: Mix well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 }, { "note": "Gently rock the dish forward and backward to mix.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 94.0, "video_path": "videos640/DJI_09.mp4", "video_start": 86.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_44", "eval_id": "monnext_clean_0212", "history_variant": "clean", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24},{\"notes\":[\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\"],\"step\":\"4\",\"tas\":120,\"tds\":64}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 }, { "notes": [ "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction." ], "step": "4", "tas": 120, "tds": 64 } ], "on": "5", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add 2 µL QuickExtract lysate as the DNA template.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 162.5, "video_path": "videos640/XM_44.mp4", "video_start": 144.5, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_44", "eval_id": "monnext_skip_0212", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"notes\":[\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\"],\"step\":\"1\",\"tas\":17,\"tds\":17},{\"notes\":[\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\"],\"step\":\"3\",\"tas\":55,\"tds\":24}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "notes": [ "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice." ], "step": "1", "tas": 17, "tds": 17 }, { "notes": [ "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well." ], "step": "3", "tas": 55, "tds": 24 } ], "on": "5", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 4: Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add 2 µL QuickExtract lysate as the DNA template.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 162.5, "video_path": "videos640/XM_44.mp4", "video_start": 144.5, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_clean_0213", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":60,\"tds\":4},{\"notes\":[\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\"],\"step\":\"6\",\"tas\":103,\"tds\":33}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":60,\"tds\":4},{\"notes\":[\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\"],\"step\":\"6\",\"tas\":103,\"tds\":33}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 55, "tds": 9 }, { "notes": [ "Immediately return the tube to ice for 5 seconds." ], "step": "5", "tas": 60, "tds": 4 }, { "notes": [ "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic." ], "step": "6", "tas": 103, "tds": 33 } ], "on": "7", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Invert the plates.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 130.5, "video_path": "videos640/DJI_17.mp4", "video_start": 112.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_skip_0213", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":60,\"tds\":4}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":55,\"tds\":9},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":60,\"tds\":4}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 55, "tds": 9 }, { "notes": [ "Immediately return the tube to ice for 5 seconds." ], "step": "5", "tas": 60, "tds": 4 } ], "on": "7", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 6: Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Invert the plates.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7" ], "task_type": "monitor_next_step_delta", "video_end": 130.5, "video_path": "videos640/DJI_17.mp4", "video_start": 112.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0214", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 } ], "on": "9", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Ensure even distribution by tilting dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 101.875, "video_path": "videos640/DJI_07.mp4", "video_start": 99.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0214", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 } ], "on": "9", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 8: Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "error_type": "step_skipped", "step_ref": "8", "t": 0.0 } ], "new_notes": [ { "note": "Ensure even distribution by tilting dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 8 was completed before continuing." }, "target_error_step_id": "8", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 101.875, "video_path": "videos640/DJI_07.mp4", "video_start": 99.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_03_09_HG", "eval_id": "monnext_clean_0215", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load mixed samples into the gel\"],\"step\":\"1\",\"tas\":105,\"tds\":105}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Load mixed samples into the gel\"],\"step\":\"1\",\"tas\":105,\"tds\":105}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Load mixed samples into the gel" ], "step": "1", "tas": 105, "tds": 105 } ], "on": "2", "protocol": [ { "desc": "Load mixed samples into the gel", "order": 1, "step": "1" }, { "desc": "Place the lid on the electrophoresis tank", "order": 2, "step": "2" }, { "desc": "Turn on the power supply and set to 110V", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Place the lid on the electrophoresis tank", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 112.1, "video_path": "videos640/MV_03_09_HG.mp4", "video_start": 109.9, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_09_HG", "eval_id": "monnext_skip_0215", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Load mixed samples into the gel", "order": 1, "step": "1" }, { "desc": "Place the lid on the electrophoresis tank", "order": 2, "step": "2" }, { "desc": "Turn on the power supply and set to 110V", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Load mixed samples into the gel", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Place the lid on the electrophoresis tank", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 112.1, "video_path": "videos640/MV_03_09_HG.mp4", "video_start": 109.9, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_06_HG", "eval_id": "monnext_clean_0216", "history_variant": "clean", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve the 5 0.5mL centrifuge tubes\"],\"step\":\"1\",\"tas\":48,\"tds\":48}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve the 5 0.5mL centrifuge tubes" ], "step": "1", "tas": 48, "tds": 48 } ], "on": "2", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Label centrifuge tubes", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 127.0, "video_path": "videos640/MV_03_06_HG.mp4", "video_start": 109.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "MV_03_06_HG", "eval_id": "monnext_skip_0216", "history_variant": "skipped_last_step", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Double Digest & Gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Retrieve the 5 0.5mL centrifuge tubes", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Label centrifuge tubes", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 127.0, "video_path": "videos640/MV_03_06_HG.mp4", "video_start": 109.0, "view_role": "multiview", "window_kind": "same_step" }, { "clip_id": "DJI_48", "eval_id": "monnext_clean_0217", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":16}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":16}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains target cells", "micropipette Used for adding reagents and virus", "TC hood Laminar flow hood for sterile work", "incubator Standard culture conditions (37°C, 5% CO2)" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 16 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium", "lentivirus suspension Added at desired MOI" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 }, { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 35.7, "video_path": "videos640/DJI_48.mp4", "video_start": 29.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_48", "eval_id": "monnext_skip_0217", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Contains target cells", "micropipette Used for adding reagents and virus", "TC hood Laminar flow hood for sterile work", "incubator Standard culture conditions (37°C, 5% CO2)" ], "history": [], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium", "lentivirus suspension Added at desired MOI" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 }, { "note": "Gently swirl the plate to ensure even distribution.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 35.7, "video_path": "videos640/DJI_48.mp4", "video_start": 29.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_59", "eval_id": "monnext_clean_0218", "history_variant": "clean", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":14},{\"notes\":[\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\"],\"step\":\"2\",\"tas\":88,\"tds\":70}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":14},{\"notes\":[\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\"],\"step\":\"2\",\"tas\":88,\"tds\":70}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 18, "tds": 14 }, { "notes": [ "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris." ], "step": "2", "tas": 88, "tds": 70 } ], "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 92.875, "video_path": "videos640/DJI_59.mp4", "video_start": 90.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_59", "eval_id": "monnext_skip_0218", "history_variant": "skipped_last_step", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":18,\"tds\":14}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 18, "tds": 14 } ], "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 92.875, "video_path": "videos640/DJI_59.mp4", "video_start": 90.125, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_51", "eval_id": "monnext_clean_0219", "history_variant": "clean", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7},{\"notes\":[\"24 μL sterile H₂O\"],\"step\":\"3.1\",\"tas\":50,\"tds\":9},{\"notes\":[\"6 μL of the primer mix (prepared above)\"],\"step\":\"3.2\",\"tas\":58,\"tds\":7}],\"on\":\"3.3\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 Reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7},{\"notes\":[\"24 μL sterile H₂O\"],\"step\":\"3.1\",\"tas\":50,\"tds\":9},{\"notes\":[\"6 μL of the primer mix (prepared above)\"],\"step\":\"3.2\",\"tas\":58,\"tds\":7}],\"on\":\"3.3\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "notes": [ "16 μL sterile H₂O" ], "step": "2.1", "tas": 14, "tds": 7 }, { "notes": [ "2 μL Forward Primer (from 100 μM stock)" ], "step": "2.2", "tas": 22, "tds": 7 }, { "notes": [ "24 μL sterile H₂O" ], "step": "3.1", "tas": 50, "tds": 9 }, { "notes": [ "6 μL of the primer mix (prepared above)" ], "step": "3.2", "tas": 58, "tds": 7 } ], "on": "3.3", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3.3", "target_delta": { "current_step": "3.3", "errors": [], "new_notes": [ { "note": "30 μL of 2x PCR Master Mix", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3.3", "target_visible_step_ids": [ "3.3" ], "task_type": "monitor_next_step_delta", "video_end": 67.975, "video_path": "videos640/DJI_51.mp4", "video_start": 63.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_51", "eval_id": "monnext_skip_0219", "history_variant": "skipped_last_step", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7},{\"notes\":[\"24 μL sterile H₂O\"],\"step\":\"3.1\",\"tas\":50,\"tds\":9}],\"on\":\"3.3\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 Reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"notes\":[\"16 μL sterile H₂O\"],\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"notes\":[\"2 μL Forward Primer (from 100 μM stock)\"],\"step\":\"2.2\",\"tas\":22,\"tds\":7},{\"notes\":[\"24 μL sterile H₂O\"],\"step\":\"3.1\",\"tas\":50,\"tds\":9}],\"on\":\"3.3\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "notes": [ "16 μL sterile H₂O" ], "step": "2.1", "tas": 14, "tds": 7 }, { "notes": [ "2 μL Forward Primer (from 100 μM stock)" ], "step": "2.2", "tas": 22, "tds": 7 }, { "notes": [ "24 μL sterile H₂O" ], "step": "3.1", "tas": 50, "tds": 9 } ], "on": "3.3", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3.3", "target_delta": { "current_step": "3.3", "errors": [ { "description": "The state is missing previously completed step 3.2: 6 μL of the primer mix (prepared above)", "error_type": "step_skipped", "step_ref": "3.2", "t": 0.0 } ], "new_notes": [ { "note": "30 μL of 2x PCR Master Mix", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3.2 was completed before continuing." }, "target_error_step_id": "3.2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3.3", "target_visible_step_ids": [ "3.3" ], "task_type": "monitor_next_step_delta", "video_end": 67.975, "video_path": "videos640/DJI_51.mp4", "video_start": 63.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_11", "eval_id": "monnext_clean_0220", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9},{\"notes\":[\"Add 10 µL of DNA ladder into a separate well.\"],\"step\":\"3\",\"tas\":34,\"tds\":7}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9},{\"notes\":[\"Add 10 µL of DNA ladder into a separate well.\"],\"step\":\"3\",\"tas\":34,\"tds\":7}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 21, "tds": 9 }, { "notes": [ "Add 10 µL of DNA ladder into a separate well." ], "step": "3", "tas": 34, "tds": 7 } ], "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1", "4" ], "task_type": "monitor_next_step_delta", "video_end": 44.25, "video_path": "videos640/XM_11.mp4", "video_start": 39.3, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_11", "eval_id": "monnext_skip_0220", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"notes\":[\"Load 10 µL of the prepared DNA sample into a well.\"],\"step\":\"2\",\"tas\":21,\"tds\":9}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "notes": [ "Load 10 µL of the prepared DNA sample into a well." ], "step": "2", "tas": 21, "tds": 9 } ], "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Add 10 µL of DNA ladder into a separate well.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Place the Invitrogen E-gel cassette into the E-gel power base.", "t": 0.0 }, { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1", "4" ], "task_type": "monitor_next_step_delta", "video_end": 44.25, "video_path": "videos640/XM_11.mp4", "video_start": 39.3, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_39", "eval_id": "monnext_clean_0221", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12},{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":28,\"tds\":3},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":43,\"tds\":15},{\"notes\":[\"Gently swirl the plate to ensure even distribution.\"],\"step\":\"5\",\"tas\":52,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12},{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":28,\"tds\":3},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":43,\"tds\":15},{\"notes\":[\"Gently swirl the plate to ensure even distribution.\"],\"step\":\"5\",\"tas\":52,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 12 }, { "notes": [ "Thaw the required aliquot of lentivirus on ice." ], "step": "2", "tas": 28, "tds": 3 }, { "notes": [ "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection)." ], "step": "4", "tas": 43, "tds": 15 }, { "notes": [ "Gently swirl the plate to ensure even distribution." ], "step": "5", "tas": 52, "tds": 7 } ], "on": "6", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 65.2, "video_path": "videos640/XM_39.mp4", "video_start": 60.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_39", "eval_id": "monnext_skip_0221", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12},{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":28,\"tds\":3},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":43,\"tds\":15}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12},{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":28,\"tds\":3},{\"notes\":[\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\"],\"step\":\"4\",\"tas\":43,\"tds\":15}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 12 }, { "notes": [ "Thaw the required aliquot of lentivirus on ice." ], "step": "2", "tas": 28, "tds": 3 }, { "notes": [ "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection)." ], "step": "4", "tas": 43, "tds": 15 } ], "on": "6", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Gently swirl the plate to ensure even distribution.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 65.2, "video_path": "videos640/XM_39.mp4", "video_start": 60.8, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_35", "eval_id": "monnext_clean_0222", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":84,\"tds\":19}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 84, "tds": 19 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 }, { "note": "Add the transfection mix dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "1", "target_visible_step_ids": [ "1", "5" ], "task_type": "monitor_next_step_delta", "video_end": 109.0, "video_path": "videos640/XM_35.mp4", "video_start": 101.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_35", "eval_id": "monnext_skip_0222", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 } ], "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 }, { "note": "Add the transfection mix dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "1", "target_visible_step_ids": [ "1", "5" ], "task_type": "monitor_next_step_delta", "video_end": 109.0, "video_path": "videos640/XM_35.mp4", "video_start": 101.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_48_HD", "eval_id": "monnext_clean_0223", "history_variant": "clean", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\"],\"step\":\"1\",\"tas\":50,\"tds\":7}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\"],\"step\":\"1\",\"tas\":50,\"tds\":7}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack" ], "step": "1", "tas": 50, "tds": 7 } ], "on": "2", "protocol": [ { "desc": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "order": 1, "step": "1" }, { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "t": 0.0 }, { "note": "Retrieve spin column from centrifuge to rack", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 118.8, "video_path": "videos640/MV_02_48_HD.mp4", "video_start": 113.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_02_48_HD", "eval_id": "monnext_skip_0223", "history_variant": "skipped_last_step", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Plasmid Purification", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "order": 1, "step": "1" }, { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "t": 0.0 }, { "note": "Retrieve spin column from centrifuge to rack", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 118.8, "video_path": "videos640/MV_02_48_HD.mp4", "video_start": 113.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_05", "eval_id": "monnext_clean_0224", "history_variant": "clean", "operation": "Passaging&Seeding cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette Micropipette used for seeding.\",\"10 cm petri dish Used for cell maintenance.\",\"24-well cell culture plate Used for experimental seeding.\",\"CO2 Incubator Heracell Vios 160i set to 37°C and 5% CO2.\",\"Serological Pipette Used for transferring larger volumes of medium.\"],\"history\":[{\"notes\":[\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\"],\"step\":\"8\",\"tas\":364,\"tds\":252},{\"notes\":[\"Gently tap the plate edges to mix cells evenly.\"],\"step\":\"9\",\"tas\":400,\"tds\":35}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Aspirate the old medium from the 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash cells with 5 mL PBS and aspirate completely.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Pipette the suspension 5-10 times to break cell clumps.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Calculate the volume needed for 0.1 million cells per well in the 24-well plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently tap the plate edges to mix cells evenly.\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.\",\"order\":11,\"step\":\"11\"}],\"protocol_summary\":\"This procedure describes the maintenance and seeding of 293T cells, including detaching cells from a 10 cm dish, counting, and seeding into a 24-well plate for experiments and a new 10 cm dish for continued culture.\",\"reagents\":[\"PBS (5 mL) Used for washing cells.\",\"Trypsin-EDTA (1 mL) Used for cell detachment.\",\"Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for fresh culture.\",\"Trypan Blue (100 μL) Used for cell counting.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Passaging and Seeding 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette Micropipette used for seeding.\",\"10 cm petri dish Used for cell maintenance.\",\"24-well cell culture plate Used for experimental seeding.\",\"CO2 Incubator Heracell Vios 160i set to 37°C and 5% CO2.\",\"Serological Pipette Used for transferring larger volumes of medium.\"],\"history\":[{\"notes\":[\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\"],\"step\":\"8\",\"tas\":364,\"tds\":252},{\"notes\":[\"Gently tap the plate edges to mix cells evenly.\"],\"step\":\"9\",\"tas\":400,\"tds\":35}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Aspirate the old medium from the 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash cells with 5 mL PBS and aspirate completely.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Pipette the suspension 5-10 times to break cell clumps.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Calculate the volume needed for 0.1 million cells per well in the 24-well plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently tap the plate edges to mix cells evenly.\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.\",\"order\":11,\"step\":\"11\"}],\"protocol_summary\":\"This procedure describes the maintenance and seeding of 293T cells, including detaching cells from a 10 cm dish, counting, and seeding into a 24-well plate for experiments and a new 10 cm dish for continued culture.\",\"reagents\":[\"PBS (5 mL) Used for washing cells.\",\"Trypsin-EDTA (1 mL) Used for cell detachment.\",\"Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for fresh culture.\",\"Trypan Blue (100 μL) Used for cell counting.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette Micropipette used for seeding.", "10 cm petri dish Used for cell maintenance.", "24-well cell culture plate Used for experimental seeding.", "CO2 Incubator Heracell Vios 160i set to 37°C and 5% CO2.", "Serological Pipette Used for transferring larger volumes of medium." ], "history": [ { "notes": [ "Add 500 μL DMEM to each well first, then add the calculated cell volume." ], "step": "8", "tas": 364, "tds": 252 }, { "notes": [ "Gently tap the plate edges to mix cells evenly." ], "step": "9", "tas": 400, "tds": 35 } ], "on": "10", "protocol": [ { "desc": "Aspirate the old medium from the 10 cm dish.", "order": 1, "step": "1" }, { "desc": "Wash cells with 5 mL PBS and aspirate completely.", "order": 2, "step": "2" }, { "desc": "Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.", "order": 3, "step": "3" }, { "desc": "Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.", "order": 4, "step": "4" }, { "desc": "Pipette the suspension 5-10 times to break cell clumps.", "order": 5, "step": "5" }, { "desc": "Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.", "order": 6, "step": "6" }, { "desc": "Calculate the volume needed for 0.1 million cells per well in the 24-well plate.", "order": 7, "step": "7" }, { "desc": "Add 500 μL DMEM to each well first, then add the calculated cell volume.", "order": 8, "step": "8" }, { "desc": "Gently tap the plate edges to mix cells evenly.", "order": 9, "step": "9" }, { "desc": "Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.", "order": 10, "step": "10" }, { "desc": "Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.", "order": 11, "step": "11" } ], "protocol_summary": "This procedure describes the maintenance and seeding of 293T cells, including detaching cells from a 10 cm dish, counting, and seeding into a 24-well plate for experiments and a new 10 cm dish for continued culture.", "reagents": [ "PBS (5 mL) Used for washing cells.", "Trypsin-EDTA (1 mL) Used for cell detachment.", "Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for fresh culture.", "Trypan Blue (100 μL) Used for cell counting." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "11", "target_delta": { "current_step": "11", "errors": [], "new_notes": [ { "note": "Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.", "t": 0.0 }, { "note": "Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "10", "target_visible_step_ids": [ "10", "11" ], "task_type": "monitor_next_step_delta", "video_end": 805.0, "video_path": "videos640/DJI_05.mp4", "video_start": 797.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_05", "eval_id": "monnext_skip_0224", "history_variant": "skipped_last_step", "operation": "Passaging&Seeding cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette Micropipette used for seeding.\",\"10 cm petri dish Used for cell maintenance.\",\"24-well cell culture plate Used for experimental seeding.\",\"CO2 Incubator Heracell Vios 160i set to 37°C and 5% CO2.\",\"Serological Pipette Used for transferring larger volumes of medium.\"],\"history\":[{\"notes\":[\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\"],\"step\":\"8\",\"tas\":364,\"tds\":252}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Aspirate the old medium from the 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash cells with 5 mL PBS and aspirate completely.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Pipette the suspension 5-10 times to break cell clumps.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Calculate the volume needed for 0.1 million cells per well in the 24-well plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently tap the plate edges to mix cells evenly.\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.\",\"order\":11,\"step\":\"11\"}],\"protocol_summary\":\"This procedure describes the maintenance and seeding of 293T cells, including detaching cells from a 10 cm dish, counting, and seeding into a 24-well plate for experiments and a new 10 cm dish for continued culture.\",\"reagents\":[\"PBS (5 mL) Used for washing cells.\",\"Trypsin-EDTA (1 mL) Used for cell detachment.\",\"Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for fresh culture.\",\"Trypan Blue (100 μL) Used for cell counting.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Passaging and Seeding 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette Micropipette used for seeding.\",\"10 cm petri dish Used for cell maintenance.\",\"24-well cell culture plate Used for experimental seeding.\",\"CO2 Incubator Heracell Vios 160i set to 37°C and 5% CO2.\",\"Serological Pipette Used for transferring larger volumes of medium.\"],\"history\":[{\"notes\":[\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\"],\"step\":\"8\",\"tas\":364,\"tds\":252}],\"on\":\"10\",\"protocol\":[{\"desc\":\"Aspirate the old medium from the 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash cells with 5 mL PBS and aspirate completely.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Pipette the suspension 5-10 times to break cell clumps.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Calculate the volume needed for 0.1 million cells per well in the 24-well plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently tap the plate edges to mix cells evenly.\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.\",\"order\":11,\"step\":\"11\"}],\"protocol_summary\":\"This procedure describes the maintenance and seeding of 293T cells, including detaching cells from a 10 cm dish, counting, and seeding into a 24-well plate for experiments and a new 10 cm dish for continued culture.\",\"reagents\":[\"PBS (5 mL) Used for washing cells.\",\"Trypsin-EDTA (1 mL) Used for cell detachment.\",\"Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for fresh culture.\",\"Trypan Blue (100 μL) Used for cell counting.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "BrandTech Transferpette Micropipette used for seeding.", "10 cm petri dish Used for cell maintenance.", "24-well cell culture plate Used for experimental seeding.", "CO2 Incubator Heracell Vios 160i set to 37°C and 5% CO2.", "Serological Pipette Used for transferring larger volumes of medium." ], "history": [ { "notes": [ "Add 500 μL DMEM to each well first, then add the calculated cell volume." ], "step": "8", "tas": 364, "tds": 252 } ], "on": "10", "protocol": [ { "desc": "Aspirate the old medium from the 10 cm dish.", "order": 1, "step": "1" }, { "desc": "Wash cells with 5 mL PBS and aspirate completely.", "order": 2, "step": "2" }, { "desc": "Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.", "order": 3, "step": "3" }, { "desc": "Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.", "order": 4, "step": "4" }, { "desc": "Pipette the suspension 5-10 times to break cell clumps.", "order": 5, "step": "5" }, { "desc": "Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.", "order": 6, "step": "6" }, { "desc": "Calculate the volume needed for 0.1 million cells per well in the 24-well plate.", "order": 7, "step": "7" }, { "desc": "Add 500 μL DMEM to each well first, then add the calculated cell volume.", "order": 8, "step": "8" }, { "desc": "Gently tap the plate edges to mix cells evenly.", "order": 9, "step": "9" }, { "desc": "Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.", "order": 10, "step": "10" }, { "desc": "Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.", "order": 11, "step": "11" } ], "protocol_summary": "This procedure describes the maintenance and seeding of 293T cells, including detaching cells from a 10 cm dish, counting, and seeding into a 24-well plate for experiments and a new 10 cm dish for continued culture.", "reagents": [ "PBS (5 mL) Used for washing cells.", "Trypsin-EDTA (1 mL) Used for cell detachment.", "Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for fresh culture.", "Trypan Blue (100 μL) Used for cell counting." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "11", "target_delta": { "current_step": "11", "errors": [ { "description": "The state is missing previously completed step 9: Gently tap the plate edges to mix cells evenly.", "error_type": "step_skipped", "step_ref": "9", "t": 0.0 } ], "new_notes": [ { "note": "Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.", "t": 0.0 }, { "note": "Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 9 was completed before continuing." }, "target_error_step_id": "9", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "10", "target_visible_step_ids": [ "10", "11" ], "task_type": "monitor_next_step_delta", "video_end": 805.0, "video_path": "videos640/DJI_05.mp4", "video_start": 797.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_35", "eval_id": "monnext_clean_0225", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":65,\"tds\":62}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 65, "tds": 62 } ], "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [], "new_notes": [ { "note": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "t": 0.0 }, { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "1" ], "task_type": "monitor_next_step_delta", "video_end": 90.0, "video_path": "videos640/XM_35.mp4", "video_start": 82.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_35", "eval_id": "monnext_skip_0225", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[],\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [], "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "1", "target_delta": { "current_step": "1", "errors": [ { "description": "The state is missing previously completed step 2: In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "t": 0.0 }, { "note": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "1" ], "task_type": "monitor_next_step_delta", "video_end": 90.0, "video_path": "videos640/XM_35.mp4", "video_start": 82.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_32", "eval_id": "monnext_clean_0226", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 15, "tds": 10 } ], "on": "2.2", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "2 µL 6× E-gel loading buffer", "t": 0.0 }, { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2.2", "target_visible_step_ids": [ "2.2", "4" ], "task_type": "monitor_next_step_delta", "video_end": 35.7, "video_path": "videos640/DJI_32.mp4", "video_start": 29.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_32", "eval_id": "monnext_skip_0226", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "2.2", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2.1: 10 µL DNA sample", "error_type": "step_skipped", "step_ref": "2.1", "t": 0.0 } ], "new_notes": [ { "note": "2 µL 6× E-gel loading buffer", "t": 0.0 }, { "note": "Load 10–20 µL of the prepared DNA sample into a well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2.1 was completed before continuing." }, "target_error_step_id": "2.1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2.2", "target_visible_step_ids": [ "2.2", "4" ], "task_type": "monitor_next_step_delta", "video_end": 35.7, "video_path": "videos640/DJI_32.mp4", "video_start": 29.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_22", "eval_id": "monnext_clean_0227", "history_variant": "clean", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":117,\"tds\":29}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36},{\"notes\":[\"Add cytokine(s) to the medium at the desired working concentration.\"],\"step\":\"5\",\"tas\":117,\"tds\":29}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 10, "tds": 10 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 22, "tds": 12 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 52, "tds": 30 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 88, "tds": 36 }, { "notes": [ "Add cytokine(s) to the medium at the desired working concentration." ], "step": "5", "tas": 117, "tds": 29 } ], "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "t": 0.0 }, { "note": "Place the plate back into the incubator at the correct conditions.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 144.0, "video_path": "videos640/DJI_22.mp4", "video_start": 136.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_22", "eval_id": "monnext_skip_0227", "history_variant": "skipped_last_step", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Adding Cytokine into Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"notes\":[\"Disinfect hands thoroughly with 70% ethanol.\"],\"step\":\"1\",\"tas\":10,\"tds\":10},{\"notes\":[\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\"],\"step\":\"2\",\"tas\":22,\"tds\":12},{\"notes\":[\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\"],\"step\":\"3\",\"tas\":52,\"tds\":30},{\"notes\":[\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\"],\"step\":\"4\",\"tas\":88,\"tds\":36}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "notes": [ "Disinfect hands thoroughly with 70% ethanol." ], "step": "1", "tas": 10, "tds": 10 }, { "notes": [ "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood" ], "step": "2", "tas": 22, "tds": 12 }, { "notes": [ "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells." ], "step": "3", "tas": 52, "tds": 30 }, { "notes": [ "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate." ], "step": "4", "tas": 88, "tds": 36 } ], "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add cytokine(s) to the medium at the desired working concentration.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "t": 0.0 }, { "note": "Place the plate back into the incubator at the correct conditions.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 144.0, "video_path": "videos640/DJI_22.mp4", "video_start": 136.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_26", "eval_id": "monnext_clean_0228", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":71,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12},{\"notes\":[\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\"],\"step\":\"6\",\"tas\":71,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 34, "tds": 15 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 45, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 12 }, { "notes": [ "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL." ], "step": "6", "tas": 71, "tds": 12 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 100.0, "video_path": "videos640/DJI_26.mp4", "video_start": 92.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_26", "eval_id": "monnext_skip_0228", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":18,\"tds\":13},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":34,\"tds\":15},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":45,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":58,\"tds\":12}],\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 18, "tds": 13 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 34, "tds": 15 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 45, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 58, "tds": 12 } ], "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "8", "target_delta": { "current_step": "8", "errors": [ { "description": "The state is missing previously completed step 6: Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "7", "target_visible_step_ids": [ "7", "8" ], "task_type": "monitor_next_step_delta", "video_end": 100.0, "video_path": "videos640/DJI_26.mp4", "video_start": 92.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_15", "eval_id": "monnext_clean_0229", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":18,\"tds\":13},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":26,\"tds\":8},{\"notes\":[\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\"],\"step\":\"5\",\"tas\":38,\"tds\":12},{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"3\",\"tas\":44,\"tds\":6}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":18,\"tds\":13},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":26,\"tds\":8},{\"notes\":[\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\"],\"step\":\"5\",\"tas\":38,\"tds\":12},{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"3\",\"tas\":44,\"tds\":6}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 18, "tds": 13 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 26, "tds": 8 }, { "notes": [ "Add 5 µL of DNA ladder (with loading buffer) into a separate well." ], "step": "5", "tas": 38, "tds": 12 }, { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "3", "tas": 44, "tds": 6 } ], "on": "6", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 47.875, "video_path": "videos640/XM_15.mp4", "video_start": 45.125, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_15", "eval_id": "monnext_skip_0229", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":18,\"tds\":13},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":26,\"tds\":8},{\"notes\":[\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\"],\"step\":\"5\",\"tas\":38,\"tds\":12}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"10 µL DNA sample\"],\"step\":\"2.1\",\"tas\":18,\"tds\":13},{\"notes\":[\"Load 10–20 µL of the prepared DNA sample into a well.\"],\"step\":\"4\",\"tas\":26,\"tds\":8},{\"notes\":[\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\"],\"step\":\"5\",\"tas\":38,\"tds\":12}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "10 µL DNA sample" ], "step": "2.1", "tas": 18, "tds": 13 }, { "notes": [ "Load 10–20 µL of the prepared DNA sample into a well." ], "step": "4", "tas": 26, "tds": 8 }, { "notes": [ "Add 5 µL of DNA ladder (with loading buffer) into a separate well." ], "step": "5", "tas": 38, "tds": 12 } ], "on": "6", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 3: Place the Invitrogen E-gel cassette into the E-gel power base.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Press the “Run” button on the E-gel power base to start electrophoresis.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 47.875, "video_path": "videos640/XM_15.mp4", "video_start": 45.125, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_35", "eval_id": "monnext_clean_0230", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base The device used to run the gel", "Pipette", "Microtube" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer before loading", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Includes loading buffer" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2.1", "target_delta": { "current_step": "2.1", "errors": [], "new_notes": [ { "note": "10 µL DNA sample", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2.1", "target_visible_step_ids": [ "2.1" ], "task_type": "monitor_next_step_delta", "video_end": 16.625, "video_path": "videos640/DJI_35.mp4", "video_start": 8.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_35", "eval_id": "monnext_skip_0230", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base The device used to run the gel", "Pipette", "Microtube" ], "history": [], "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer before loading", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Includes loading buffer" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2.1", "target_delta": { "current_step": "2.1", "errors": [ { "description": "The state is missing previously completed step 1: Thaw DNA samples on ice if frozen.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "10 µL DNA sample", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2.1", "target_visible_step_ids": [ "2.1" ], "task_type": "monitor_next_step_delta", "video_end": 16.625, "video_path": "videos640/DJI_35.mp4", "video_start": 8.375, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_26", "eval_id": "monnext_clean_0231", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":4,\"tds\":4}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 4, "tds": 4 } ], "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "t": 0.0 }, { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 23.0, "video_path": "videos640/DJI_26.mp4", "video_start": 15.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_26", "eval_id": "monnext_skip_0231", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "t": 0.0 }, { "note": "Add 1 μL of Forward Primer (10 μM stock).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 23.0, "video_path": "videos640/DJI_26.mp4", "video_start": 15.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_06", "eval_id": "monnext_clean_0232", "history_variant": "clean", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":46,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 38, "tds": 7 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 46, "tds": 7 } ], "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 60.425, "video_path": "videos640/DJI_06.mp4", "video_start": 56.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_06", "eval_id": "monnext_skip_0232", "history_variant": "skipped_last_step", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":3,\"tds\":2},{\"notes\":[\"Get all reagents\"],\"step\":\"2\",\"tas\":10,\"tds\":7},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":28,\"tds\":18},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":38,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 3, "tds": 2 }, { "notes": [ "Get all reagents" ], "step": "2", "tas": 10, "tds": 7 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 28, "tds": 18 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 38, "tds": 7 } ], "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 5: Place dish in biosafety cabinet", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Aspirate old medium completely using vacuum aspirator", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 60.425, "video_path": "videos640/DJI_06.mp4", "video_start": 56.575, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_clean_0233", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":46,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 46, "tds": 1 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 52.975, "video_path": "videos640/DJI_17.mp4", "video_start": 48.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_skip_0233", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":45,\"tds\":7}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 45, "tds": 7 } ], "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 3: Incubate the DNA-cell mixture on ice for 5 seconds.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 52.975, "video_path": "videos640/DJI_17.mp4", "video_start": 48.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "MV_01_11_HD", "eval_id": "monnext_clean_0234", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Attach pipet to pipetterman without touching the glass\"],\"step\":\"1\",\"tas\":0,\"tds\":0}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Attach pipet to pipetterman without touching the glass" ], "step": "1", "tas": 0, "tds": 0 } ], "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Attach 5mL pipet tip to pipette man", "t": 0.0 }, { "note": "Move pipet tip and fluid waste disposals to easily reachable location", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 8.7, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 3.3, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_11_HD", "eval_id": "monnext_skip_0234", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Attach pipet to pipetterman without touching the glass", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Attach 5mL pipet tip to pipette man", "t": 0.0 }, { "note": "Move pipet tip and fluid waste disposals to easily reachable location", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 8.7, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 3.3, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0235", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10},{\"notes\":[\"Gently tap sides of dish to help detachment\"],\"step\":\"11\",\"tas\":142,\"tds\":13}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 }, { "notes": [ "Incubate at 37°C for 1 minutes" ], "step": "10", "tas": 114, "tds": 10 }, { "notes": [ "Gently tap sides of dish to help detachment" ], "step": "11", "tas": 142, "tds": 13 } ], "on": "12", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "14", "target_delta": { "current_step": "14", "errors": [], "new_notes": [ { "note": "Add 5ml complete medium to dish", "t": 0.0 }, { "note": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "12", "target_visible_step_ids": [ "12", "14" ], "task_type": "monitor_next_step_delta", "video_end": 177.0, "video_path": "videos640/DJI_07.mp4", "video_start": 169.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0235", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11},{\"notes\":[\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\"],\"step\":\"8\",\"tas\":97,\"tds\":33},{\"notes\":[\"Ensure even distribution by tilting dish\"],\"step\":\"9\",\"tas\":103,\"tds\":5},{\"notes\":[\"Incubate at 37°C for 1 minutes\"],\"step\":\"10\",\"tas\":114,\"tds\":10}],\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 }, { "notes": [ "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish" ], "step": "8", "tas": 97, "tds": 33 }, { "notes": [ "Ensure even distribution by tilting dish" ], "step": "9", "tas": 103, "tds": 5 }, { "notes": [ "Incubate at 37°C for 1 minutes" ], "step": "10", "tas": 114, "tds": 10 } ], "on": "12", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "14", "target_delta": { "current_step": "14", "errors": [ { "description": "The state is missing previously completed step 11: Gently tap sides of dish to help detachment", "error_type": "step_skipped", "step_ref": "11", "t": 0.0 } ], "new_notes": [ { "note": "Add 5ml complete medium to dish", "t": 0.0 }, { "note": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 11 was completed before continuing." }, "target_error_step_id": "11", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "12", "target_visible_step_ids": [ "12", "14" ], "task_type": "monitor_next_step_delta", "video_end": 177.0, "video_path": "videos640/DJI_07.mp4", "video_start": 169.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_12", "eval_id": "monnext_clean_0236", "history_variant": "clean", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":10,\"tds\":6}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"notes\":[\"Place the Invitrogen E-gel cassette into the E-gel power base.\"],\"step\":\"1\",\"tas\":10,\"tds\":6}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [ { "notes": [ "Place the Invitrogen E-gel cassette into the E-gel power base." ], "step": "1", "tas": 10, "tds": 6 } ], "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Load 10 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 29.0, "video_path": "videos640/XM_12.mp4", "video_start": 21.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_12", "eval_id": "monnext_skip_0236", "history_variant": "skipped_last_step", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [], "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Place the Invitrogen E-gel cassette into the E-gel power base.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Load 10 µL of the prepared DNA sample into a well.", "t": 0.0 }, { "note": "Add 10 µL of DNA ladder into a separate well.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 29.0, "video_path": "videos640/XM_12.mp4", "video_start": 21.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_clean_0237", "history_variant": "clean", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3},{\"notes\":[\"Aspirate old medium completely using vacuum aspirator\"],\"step\":\"6\",\"tas\":63,\"tds\":11}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 }, { "notes": [ "Aspirate old medium completely using vacuum aspirator" ], "step": "6", "tas": 63, "tds": 11 } ], "on": "8", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "t": 0.0 }, { "note": "Ensure even distribution by tilting dish", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 100.25, "video_path": "videos640/DJI_07.mp4", "video_start": 94.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_07", "eval_id": "monnext_skip_0237", "history_variant": "skipped_last_step", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Splitting Procedure", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"notes\":[\"Spray hands with 70% ethanol\"],\"step\":\"1\",\"tas\":5,\"tds\":5},{\"notes\":[\"Spray all materials with 70% ethanol before placing in hood\"],\"step\":\"3\",\"tas\":30,\"tds\":24},{\"notes\":[\"Remove 10cm dish from incubator\"],\"step\":\"4\",\"tas\":47,\"tds\":9},{\"notes\":[\"Place dish in biosafety cabinet\"],\"step\":\"5\",\"tas\":51,\"tds\":3}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "notes": [ "Spray hands with 70% ethanol" ], "step": "1", "tas": 5, "tds": 5 }, { "notes": [ "Spray all materials with 70% ethanol before placing in hood" ], "step": "3", "tas": 30, "tds": 24 }, { "notes": [ "Remove 10cm dish from incubator" ], "step": "4", "tas": 47, "tds": 9 }, { "notes": [ "Place dish in biosafety cabinet" ], "step": "5", "tas": 51, "tds": 3 } ], "on": "8", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 6: Aspirate old medium completely using vacuum aspirator", "error_type": "step_skipped", "step_ref": "6", "t": 0.0 } ], "new_notes": [ { "note": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "t": 0.0 }, { "note": "Ensure even distribution by tilting dish", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 6 was completed before continuing." }, "target_error_step_id": "6", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 100.25, "video_path": "videos640/DJI_07.mp4", "video_start": 94.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_19", "eval_id": "monnext_clean_0238", "history_variant": "clean", "operation": "Transformation (correct) replicate 2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":28,\"tds\":28}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "heat block / water bath used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 28, "tds": 28 } ], "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Mix gently by flicking the tube 4-5 times.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 30.5, "video_path": "videos640/DJI_19.mp4", "video_start": 28.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_19", "eval_id": "monnext_skip_0238", "history_variant": "skipped_last_step", "operation": "Transformation (correct) replicate 2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "heat block / water bath used for heat shock at 42°C" ], "history": [], "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Add 5 μL of plasmid DNA to the competent E. coli cells.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Mix gently by flicking the tube 4-5 times.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 30.5, "video_path": "videos640/DJI_19.mp4", "video_start": 28.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_clean_0239", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14},{\"notes\":[\"Mix well.\"],\"step\":\"4\",\"tas\":79,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 }, { "notes": [ "Mix well." ], "step": "4", "tas": 79, "tds": 14 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 86.975, "video_path": "videos640/DJI_09.mp4", "video_start": 82.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_09", "eval_id": "monnext_skip_0239", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Cas9 Delivery", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":35,\"tds\":18},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":49,\"tds\":13},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":64,\"tds\":14}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 35, "tds": 18 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 49, "tds": 13 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 64, "tds": 14 } ], "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Mix well.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6" ], "task_type": "monitor_next_step_delta", "video_end": 86.975, "video_path": "videos640/DJI_09.mp4", "video_start": 82.025, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_32", "eval_id": "monnext_clean_0240", "history_variant": "clean", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"Thaw DNA samples on ice if frozen.\"],\"step\":\"1\",\"tas\":5,\"tds\":5}],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "notes": [ "Thaw DNA samples on ice if frozen." ], "step": "1", "tas": 5, "tds": 5 } ], "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2.1", "target_delta": { "current_step": "2.1", "errors": [], "new_notes": [ { "note": "10 µL DNA sample", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2.1", "target_visible_step_ids": [ "2.1" ], "task_type": "monitor_next_step_delta", "video_end": 12.75, "video_path": "videos640/DJI_32.mp4", "video_start": 7.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_32", "eval_id": "monnext_skip_0240", "history_variant": "skipped_last_step", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Loading DNA Samples on E-gel", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[],\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [], "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2.1", "target_delta": { "current_step": "2.1", "errors": [ { "description": "The state is missing previously completed step 1: Thaw DNA samples on ice if frozen.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "10 µL DNA sample", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2.1", "target_visible_step_ids": [ "2.1" ], "task_type": "monitor_next_step_delta", "video_end": 12.75, "video_path": "videos640/DJI_32.mp4", "video_start": 7.25, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_31", "eval_id": "monnext_clean_0241", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":23,\"tds\":4}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":23,\"tds\":4}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 6, "tds": 6 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 12, "tds": 5 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 18, "tds": 5 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 23, "tds": 4 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 46.8, "video_path": "videos640/DJI_31.mp4", "video_start": 41.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_31", "eval_id": "monnext_skip_0241", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":6,\"tds\":6},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":12,\"tds\":5},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":18,\"tds\":5}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 6, "tds": 6 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 12, "tds": 5 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 18, "tds": 5 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 46.8, "video_path": "videos640/DJI_31.mp4", "video_start": 41.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_21", "eval_id": "monnext_clean_0242", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":3},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":36,\"tds\":10},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":44,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":3},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":36,\"tds\":10},{\"notes\":[\"Immediately return the tube to ice for 5 seconds.\"],\"step\":\"5\",\"tas\":44,\"tds\":7}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 22, "tds": 1 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 25, "tds": 3 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 36, "tds": 10 }, { "notes": [ "Immediately return the tube to ice for 5 seconds." ], "step": "5", "tas": 44, "tds": 7 } ], "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 }, { "note": "Invert the plates.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 61.35, "video_path": "videos640/DJI_21.mp4", "video_start": 56.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_21", "eval_id": "monnext_skip_0242", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":3},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":36,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":21,\"tds\":21},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":22,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":3},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":36,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 21, "tds": 21 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 22, "tds": 1 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 25, "tds": 3 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 36, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Immediately return the tube to ice for 5 seconds.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 }, { "note": "Invert the plates.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 61.35, "video_path": "videos640/DJI_21.mp4", "video_start": 56.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_02", "eval_id": "monnext_clean_0243", "history_variant": "clean", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"notes\":[\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\"],\"step\":\"1\",\"tas\":9,\"tds\":9}],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [ { "notes": [ "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M)." ], "step": "1", "tas": 9, "tds": 9 } ], "on": "2", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Add Forward Primer (in the tube labeled F).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 15.975, "video_path": "videos640/XM_02.mp4", "video_start": 11.025, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_02", "eval_id": "monnext_skip_0243", "history_variant": "skipped_last_step", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [], "on": "2", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Add Forward Primer (in the tube labeled F).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 15.975, "video_path": "videos640/XM_02.mp4", "video_start": 11.025, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_11", "eval_id": "monnext_clean_0244", "history_variant": "clean", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1},{\"notes\":[\"Add reagent 3 into the EP tube.\"],\"step\":\"3\",\"tas\":38,\"tds\":14}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 }, { "notes": [ "Add reagent 3 into the EP tube." ], "step": "3", "tas": 38, "tds": 14 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Mix well.", "t": 0.0 }, { "note": "Incubate at room temperature for 20 min.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 48.5, "video_path": "videos640/DJI_11.mp4", "video_start": 44.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_11", "eval_id": "monnext_skip_0244", "history_variant": "skipped_last_step", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "CRISPR Delivery Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"notes\":[\"Add reagent 1 into a sterile 1.5 mL EP tube.\"],\"step\":\"1\",\"tas\":23,\"tds\":23},{\"notes\":[\"Add reagent 2 into the EP tube.\"],\"step\":\"2\",\"tas\":24,\"tds\":1}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "notes": [ "Add reagent 1 into a sterile 1.5 mL EP tube." ], "step": "1", "tas": 23, "tds": 23 }, { "notes": [ "Add reagent 2 into the EP tube." ], "step": "2", "tas": 24, "tds": 1 } ], "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add reagent 3 into the EP tube.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Mix well.", "t": 0.0 }, { "note": "Incubate at room temperature for 20 min.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4", "5" ], "task_type": "monitor_next_step_delta", "video_end": 48.5, "video_path": "videos640/DJI_11.mp4", "video_start": 44.0, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_34", "eval_id": "monnext_clean_0245", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":113,\"tds\":73}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":113,\"tds\":73}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.", "1.5 mL tube Sterile microcentrifuge tube", "pipette Adjustable volume pipettes", "vortex mixer Used to mix plasmid and reagent solutions", "CO2 incubator For cell culture incubation", "6-well plate Observed in video as the cell culture vessel" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 113, "tds": 113 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 113, "tds": 73 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 }, { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 152.8, "video_path": "videos640/XM_34.mp4", "video_start": 147.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_34", "eval_id": "monnext_skip_0245", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":113,\"tds\":113}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.", "1.5 mL tube Sterile microcentrifuge tube", "pipette Adjustable volume pipettes", "vortex mixer Used to mix plasmid and reagent solutions", "CO2 incubator For cell culture incubation", "6-well plate Observed in video as the cell culture vessel" ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 113, "tds": 113 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the transfection mi x dropwise to the HEK293T cells.", "t": 0.0 }, { "note": "Gently swirl the dish to evenly distribute the complex.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 152.8, "video_path": "videos640/XM_34.mp4", "video_start": 147.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_15_CH", "eval_id": "monnext_clean_0246", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip" ], "step": "1", "tas": 12, "tds": 12 } ], "on": "2", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Collect 1st 750uL of trypsin", "t": 0.0 }, { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 24.8, "video_path": "videos640/MV_01_15_CH.mp4", "video_start": 19.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_15_CH", "eval_id": "monnext_skip_0246", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [], "on": "2", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Collect 1st 750uL of trypsin", "t": 0.0 }, { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 24.8, "video_path": "videos640/MV_01_15_CH.mp4", "video_start": 19.0, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "XM_42", "eval_id": "monnext_clean_0247", "history_variant": "clean", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38},{\"notes\":[\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\"],\"step\":\"5\",\"tas\":262,\"tds\":150},{\"notes\":[\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\"],\"step\":\"8\",\"tas\":289,\"tds\":22}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38},{\"notes\":[\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\"],\"step\":\"5\",\"tas\":262,\"tds\":150},{\"notes\":[\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\"],\"step\":\"8\",\"tas\":289,\"tds\":22}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "notes": [ "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:" ], "step": "2", "tas": 21, "tds": 17 }, { "notes": [ "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:" ], "step": "3", "tas": 72, "tds": 34 }, { "notes": [ "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube." ], "step": "4", "tas": 111, "tds": 38 }, { "notes": [ "Using a 10 uL pipette tip, pick a single colony from the LB agar plate." ], "step": "5", "tas": 262, "tds": 150 }, { "notes": [ "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips." ], "step": "8", "tas": 289, "tds": 22 } ], "on": "9", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 303.95, "video_path": "videos640/XM_42.mp4", "video_start": 294.05, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_42", "eval_id": "monnext_skip_0247", "history_variant": "skipped_last_step", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38},{\"notes\":[\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\"],\"step\":\"5\",\"tas\":262,\"tds\":150}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38},{\"notes\":[\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\"],\"step\":\"5\",\"tas\":262,\"tds\":150}],\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "notes": [ "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:" ], "step": "2", "tas": 21, "tds": 17 }, { "notes": [ "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:" ], "step": "3", "tas": 72, "tds": 34 }, { "notes": [ "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube." ], "step": "4", "tas": 111, "tds": 38 }, { "notes": [ "Using a 10 uL pipette tip, pick a single colony from the LB agar plate." ], "step": "5", "tas": 262, "tds": 150 } ], "on": "9", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 8: after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "error_type": "step_skipped", "step_ref": "8", "t": 0.0 } ], "new_notes": [ { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 8 was completed before continuing." }, "target_error_step_id": "8", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "9", "target_visible_step_ids": [ "9" ], "task_type": "monitor_next_step_delta", "video_end": 303.95, "video_path": "videos640/XM_42.mp4", "video_start": 294.05, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_20", "eval_id": "monnext_clean_0248", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":18,\"tds\":18},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":19,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":6},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":36,\"tds\":10}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":18,\"tds\":18},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":19,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":6},{\"notes\":[\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\"],\"step\":\"4\",\"tas\":36,\"tds\":10}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 18, "tds": 18 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 19, "tds": 1 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 25, "tds": 6 }, { "notes": [ "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds." ], "step": "4", "tas": 36, "tds": 10 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 }, { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 41.0, "video_path": "videos640/DJI_20.mp4", "video_start": 36.5, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_20", "eval_id": "monnext_skip_0248", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":18,\"tds\":18},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":19,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Bacterial Transformation Protocol", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":18,\"tds\":18},{\"notes\":[\"Mix gently by flicking the tube 4-5 times.\"],\"step\":\"2\",\"tas\":19,\"tds\":1},{\"notes\":[\"Incubate the DNA-cell mixture on ice for 5 seconds.\"],\"step\":\"3\",\"tas\":25,\"tds\":6}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 18, "tds": 18 }, { "notes": [ "Mix gently by flicking the tube 4-5 times." ], "step": "2", "tas": 19, "tds": 1 }, { "notes": [ "Incubate the DNA-cell mixture on ice for 5 seconds." ], "step": "3", "tas": 25, "tds": 6 } ], "on": "5", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "6", "target_delta": { "current_step": "6", "errors": [ { "description": "The state is missing previously completed step 4: Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "error_type": "step_skipped", "step_ref": "4", "t": 0.0 } ], "new_notes": [ { "note": "Immediately return the tube to ice for 5 seconds.", "t": 0.0 }, { "note": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 4 was completed before continuing." }, "target_error_step_id": "4", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5", "6" ], "task_type": "monitor_next_step_delta", "video_end": 41.0, "video_path": "videos640/DJI_20.mp4", "video_start": 36.5, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_15_RF", "eval_id": "monnext_clean_0249", "history_variant": "clean", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12},{\"notes\":[\"Collect 1st 750uL of trypsin\"],\"step\":\"2\",\"tas\":23,\"tds\":11}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12},{\"notes\":[\"Collect 1st 750uL of trypsin\"],\"step\":\"2\",\"tas\":23,\"tds\":11}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip" ], "step": "1", "tas": 12, "tds": 12 }, { "notes": [ "Collect 1st 750uL of trypsin" ], "step": "2", "tas": 23, "tds": 11 } ], "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 }, { "note": "Collect 2nd 750uL of trypsin", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 28.8, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 25.2, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "MV_01_15_RF", "eval_id": "monnext_skip_0249", "history_variant": "skipped_last_step", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Cell Passaging", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"notes\":[\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\"],\"step\":\"1\",\"tas\":12,\"tds\":12}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [], "history": [ { "notes": [ "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip" ], "step": "1", "tas": 12, "tds": 12 } ], "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_advances_step": true, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Collect 1st 750uL of trypsin", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Dispense into flask without touching any solid or liquid objects", "t": 0.0 }, { "note": "Collect 2nd 750uL of trypsin", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3", "4" ], "task_type": "monitor_next_step_delta", "video_end": 28.8, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 25.2, "view_role": "multiview", "window_kind": "boundary_crossing" }, { "clip_id": "XM_22", "eval_id": "monnext_clean_0250", "history_variant": "clean", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10},{\"notes\":[\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\"],\"step\":\"5\",\"tas\":42,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 32, "tds": 10 }, { "notes": [ "Add 2 μL of template DNA (concentration approx. 20 ng/μL)." ], "step": "5", "tas": 42, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 56.0, "video_path": "videos640/XM_22.mp4", "video_start": 48.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_22", "eval_id": "monnext_skip_0250", "history_variant": "skipped_last_step", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "PCR Reaction Setup", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"notes\":[\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\"],\"step\":\"1\",\"tas\":2,\"tds\":2},{\"notes\":[\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\"],\"step\":\"2\",\"tas\":12,\"tds\":10},{\"notes\":[\"Add 1 μL of Forward Primer (10 μM stock).\"],\"step\":\"3\",\"tas\":22,\"tds\":10},{\"notes\":[\"Add 1 μL of Reverse Primer (10 μM stock).\"],\"step\":\"4\",\"tas\":32,\"tds\":10}],\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "notes": [ "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice." ], "step": "1", "tas": 2, "tds": 2 }, { "notes": [ "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix." ], "step": "2", "tas": 12, "tds": 10 }, { "notes": [ "Add 1 μL of Forward Primer (10 μM stock)." ], "step": "3", "tas": 22, "tds": 10 }, { "notes": [ "Add 1 μL of Reverse Primer (10 μM stock)." ], "step": "4", "tas": 32, "tds": 10 } ], "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "7", "target_delta": { "current_step": "7", "errors": [ { "description": "The state is missing previously completed step 5: Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "t": 0.0 }, { "note": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "6", "target_visible_step_ids": [ "6", "7" ], "task_type": "monitor_next_step_delta", "video_end": 56.0, "video_path": "videos640/XM_22.mp4", "video_start": 48.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_42", "eval_id": "monnext_clean_0251", "history_variant": "clean", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38},{\"notes\":[\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\"],\"step\":\"5\",\"tas\":262,\"tds\":150}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38},{\"notes\":[\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\"],\"step\":\"5\",\"tas\":262,\"tds\":150}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "notes": [ "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:" ], "step": "2", "tas": 21, "tds": 17 }, { "notes": [ "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:" ], "step": "3", "tas": 72, "tds": 34 }, { "notes": [ "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube." ], "step": "4", "tas": 111, "tds": 38 }, { "notes": [ "Using a 10 uL pipette tip, pick a single colony from the LB agar plate." ], "step": "5", "tas": 262, "tds": 150 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [], "new_notes": [ { "note": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 294.0, "video_path": "videos640/XM_42.mp4", "video_start": 286.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "XM_42", "eval_id": "monnext_skip_0251", "history_variant": "skipped_last_step", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Colony PCR for 4 reactions", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"notes\":[\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\"],\"step\":\"2\",\"tas\":21,\"tds\":17},{\"notes\":[\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\"],\"step\":\"3\",\"tas\":72,\"tds\":34},{\"notes\":[\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\"],\"step\":\"4\",\"tas\":111,\"tds\":38}],\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "notes": [ "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:" ], "step": "2", "tas": 21, "tds": 17 }, { "notes": [ "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:" ], "step": "3", "tas": 72, "tds": 34 }, { "notes": [ "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube." ], "step": "4", "tas": 111, "tds": 38 } ], "on": "8", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_advances_step": true, "target_current_step_id": "9", "target_delta": { "current_step": "9", "errors": [ { "description": "The state is missing previously completed step 5: Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "error_type": "step_skipped", "step_ref": "5", "t": 0.0 } ], "new_notes": [ { "note": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "t": 0.0 }, { "note": "Place the tube into the thermocycler.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 5 was completed before continuing." }, "target_error_step_id": "5", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "8", "target_visible_step_ids": [ "8", "9" ], "task_type": "monitor_next_step_delta", "video_end": 294.0, "video_path": "videos640/XM_42.mp4", "video_start": 286.0, "view_role": "fpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_56", "eval_id": "monnext_clean_0252", "history_variant": "clean", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83},{\"notes\":[\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\"],\"step\":\"3\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 83, "tds": 83 }, { "notes": [ "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium." ], "step": "3", "tas": 83, "tds": 83 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [], "new_notes": [ { "note": "Add the transfection mix dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 123.5, "video_path": "videos640/DJI_56.mp4", "video_start": 105.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_56", "eval_id": "monnext_skip_0252", "history_variant": "skipped_last_step", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Packaging Transfection of 293T Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"notes\":[\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\"],\"step\":\"2\",\"tas\":83,\"tds\":83}],\"on\":\"5\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "notes": [ "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid." ], "step": "2", "tas": 83, "tds": 83 } ], "on": "5", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "5", "target_delta": { "current_step": "5", "errors": [ { "description": "The state is missing previously completed step 3: Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "error_type": "step_skipped", "step_ref": "3", "t": 0.0 } ], "new_notes": [ { "note": "Add the transfection mix dropwise to the HEK293T cells.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 3 was completed before continuing." }, "target_error_step_id": "3", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "5", "target_visible_step_ids": [ "5" ], "task_type": "monitor_next_step_delta", "video_end": 123.5, "video_path": "videos640/DJI_56.mp4", "video_start": 105.5, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "XM_39", "eval_id": "monnext_clean_0253", "history_variant": "clean", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12},{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":28,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12},{\"notes\":[\"Thaw the required aliquot of lentivirus on ice.\"],\"step\":\"2\",\"tas\":28,\"tds\":3}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 12 }, { "notes": [ "Thaw the required aliquot of lentivirus on ice." ], "step": "2", "tas": 28, "tds": 3 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 39.625, "video_path": "videos640/XM_39.mp4", "video_start": 31.375, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "XM_39", "eval_id": "monnext_skip_0253", "history_variant": "skipped_last_step", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Lentiviral Infection of Target Cells", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"notes\":[\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\"],\"step\":\"3\",\"tas\":16,\"tds\":12}],\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [ { "notes": [ "Add polybrene to the culture medium at a final concentration of 8 µg/mL." ], "step": "3", "tas": 16, "tds": 12 } ], "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_advances_step": false, "target_current_step_id": "4", "target_delta": { "current_step": "4", "errors": [ { "description": "The state is missing previously completed step 2: Thaw the required aliquot of lentivirus on ice.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "4", "target_visible_step_ids": [ "4" ], "task_type": "monitor_next_step_delta", "video_end": 39.625, "video_path": "videos640/XM_39.mp4", "video_start": 31.375, "view_role": "fpv", "window_kind": "same_step" }, { "clip_id": "DJI_44", "eval_id": "monnext_clean_0254", "history_variant": "clean", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter used for removing cell debris.\",\"1.5 mL microcentrifuge tubes Used for aliquoting the filtered virus solution.\",\"micropipette\",\"TC hood Tissue culture hood for sterile work.\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":13,\"tds\":13},{\"notes\":[\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\"],\"step\":\"2\",\"tas\":42,\"tds\":28}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter used for removing cell debris.\",\"1.5 mL microcentrifuge tubes Used for aliquoting the filtered virus solution.\",\"micropipette\",\"TC hood Tissue culture hood for sterile work.\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":13,\"tds\":13},{\"notes\":[\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\"],\"step\":\"2\",\"tas\":42,\"tds\":28}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter used for removing cell debris.", "1.5 mL microcentrifuge tubes Used for aliquoting the filtered virus solution.", "micropipette", "TC hood Tissue culture hood for sterile work." ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 13, "tds": 13 }, { "notes": [ "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris." ], "step": "2", "tas": 42, "tds": 28 } ], "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 104.0, "video_path": "videos640/DJI_44.mp4", "video_start": 86.0, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_44", "eval_id": "monnext_skip_0254", "history_variant": "skipped_last_step", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter used for removing cell debris.\",\"1.5 mL microcentrifuge tubes Used for aliquoting the filtered virus solution.\",\"micropipette\",\"TC hood Tissue culture hood for sterile work.\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtration", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter used for removing cell debris.\",\"1.5 mL microcentrifuge tubes Used for aliquoting the filtered virus solution.\",\"micropipette\",\"TC hood Tissue culture hood for sterile work.\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":13,\"tds\":13}],\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter used for removing cell debris.", "1.5 mL microcentrifuge tubes Used for aliquoting the filtered virus solution.", "micropipette", "TC hood Tissue culture hood for sterile work." ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 13, "tds": 13 } ], "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells." ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 2: Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "error_type": "step_skipped", "step_ref": "2", "t": 0.0 } ], "new_notes": [ { "note": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 2 was completed before continuing." }, "target_error_step_id": "2", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "3", "target_visible_step_ids": [ "3" ], "task_type": "monitor_next_step_delta", "video_end": 104.0, "video_path": "videos640/DJI_44.mp4", "video_start": 86.0, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_17", "eval_id": "monnext_clean_0255", "history_variant": "clean", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"notes\":[\"Add 5 μL of plasmid DNA to the competent E. coli cells.\"],\"step\":\"1\",\"tas\":33,\"tds\":33}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "notes": [ "Add 5 μL of plasmid DNA to the competent E. coli cells." ], "step": "1", "tas": 33, "tds": 33 } ], "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [], "new_notes": [ { "note": "Mix gently by flicking the tube 4-5 times.", "t": 0.0 }, { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 45.5, "video_path": "videos640/DJI_17.mp4", "video_start": 41.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_17", "eval_id": "monnext_skip_0255", "history_variant": "skipped_last_step", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "E. coli Transformation", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [], "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_advances_step": true, "target_current_step_id": "3", "target_delta": { "current_step": "3", "errors": [ { "description": "The state is missing previously completed step 1: Add 5 μL of plasmid DNA to the competent E. coli cells.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Mix gently by flicking the tube 4-5 times.", "t": 0.0 }, { "note": "Incubate the DNA-cell mixture on ice for 5 seconds.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2", "3" ], "task_type": "monitor_next_step_delta", "video_end": 45.5, "video_path": "videos640/DJI_17.mp4", "video_start": 41.85, "view_role": "tpv", "window_kind": "boundary_crossing" }, { "clip_id": "DJI_41", "eval_id": "monnext_clean_0256", "history_variant": "clean", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":15,\"tds\":15}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtering", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[{\"notes\":[\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\"],\"step\":\"1\",\"tas\":15,\"tds\":15}],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "TC hood Biosafety cabinet" ], "history": [ { "notes": [ "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter." ], "step": "1", "tas": 15, "tds": 15 } ], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 } ], "suggestion": null }, "target_error_step_id": null, "target_error_type": null, "target_has_error": false, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 34.375, "video_path": "videos640/DJI_41.mp4", "video_start": 20.625, "view_role": "tpv", "window_kind": "same_step" }, { "clip_id": "DJI_41", "eval_id": "monnext_skip_0256", "history_variant": "skipped_last_step", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nGiven the protocol being followed, the history of completed steps, and a new video window, update the monitoring state by returning a delta JSON.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"new_notes\":[{\"t\":\"number # start time of the action in seconds\",\"note\":\"string # concise natural-language observation\"}],\"errors\":[{\"t\":\"number\",\"error_type\":\"step_skipped | step_reordered | reagent_wrong | volume_wrong | technique_error | contamination_risk | timing_error | none\",\"step_ref\":\"step_id string or null\",\"description\":\"string\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\nReturn a delta JSON for only the watched lab video window.", "prompt_variant": "finetune_monitoring_delta", "protocol_title": "Virus Collecting and Filtering", "source_prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIf the watched window advances into a later protocol step, update current_step to that later step.\n\nIf the state appears to skip a prior step because the history is missing the last expected completed step, report a step_skipped error.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[],\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\"current_step\":\"step_id string or null\",\"errors\":[{\"description\":\"string\",\"error_type\":\"step_skipped | step_reordered | wrong_step_claim | stale_state | none\",\"step_ref\":\"step_id string or null\",\"t\":\"number\"}],\"new_notes\":[{\"note\":\"string # concise natural-language observation\",\"t\":\"number # start time of the action in seconds relative to this window\"}],\"suggestion\":\"string or null # brief next-action hint for the user\"}\n\n## Question\nReturn a delta JSON for only the watched lab video window.", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "TC hood Biosafety cabinet" ], "history": [], "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_advances_step": false, "target_current_step_id": "2", "target_delta": { "current_step": "2", "errors": [ { "description": "The state is missing previously completed step 1: Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "error_type": "step_skipped", "step_ref": "1", "t": 0.0 } ], "new_notes": [ { "note": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "t": 0.0 } ], "suggestion": "Confirm whether skipped step 1 was completed before continuing." }, "target_error_step_id": "1", "target_error_type": "step_skipped", "target_has_error": true, "target_start_step_id": "2", "target_visible_step_ids": [ "2" ], "task_type": "monitor_next_step_delta", "video_end": 34.375, "video_path": "videos640/DJI_41.mp4", "video_start": 20.625, "view_role": "tpv", "window_kind": "same_step" } ], "source": "not_included_public_package", "task": "monitor_next_step_delta" }