Datasets:

---

TopRepo

/

A-thaliana

like 0

Error code:   DatasetGenerationCastError
Exception:    DatasetGenerationCastError
Message:      An error occurred while generating the dataset

All the data files must have the same columns, but at some point there are 68 new columns ({'MZML_instrument', 'MZML_ms1_lowest_observed_mz', 'MZML_ms1_scan_window_lower_limit', 'PROJECT_id', 'TOPPIC_number_of_matched_experimental_fragment_ions', 'DATASET_id', 'TOPPIC_protein_accession', 'TOPPIC_proteoform_mass', 'MZML_ms1_scan', 'MZML_ms1_highest_observed_mz', 'TOPPIC_database_sequence', 'TOPPIC_proteoform_intensity', 'TOPPIC_special_amino_acids', 'MSALIGN_feature_apex_time', 'MZML_ms2_scan_window_lower_limit', 'MZML_isolation_window_upper_offset', 'TOPPIC_miscore', 'TOPPIC_number_of_unexpected_modifications', 'MZML_ms2_total_ion_current', 'TOPPIC_proteoform', 'TOPPIC_first_residue_position', 'TOPPIC_prsm_id', 'TOPPIC_spectrum-level_q-value', 'MZML_ms1_ion_injection_time', 'MZML_ms2_retention_time', 'MSALIGN_feature_id', 'MSALIGN_number_of_fragment_ions', 'MSALIGN_precursor_monoisotopic_mass', 'SUBDATASET_id', 'TOPPIC_next_residue', 'MZML_ms2_lowest_observed_mz', 'TOPPIC_proteoform-level_q-value', 'MZML_collision_energy', 'MZML_selected_ion_charge', 'TOPPIC_proteoform_id', 'MZML_ms2_highest_observed_mz', 'MSALIGN_feature_intensity', 'MZML_activation', 'TOPPIC_number_of_matched_theoretical_fragment_masses', 'TOPPIC_adjusted_precursor_mass', 'MZML_isolation_window_target_mz', 'MSALIGN_file_name', 'MSALIGN_ms1_id', 'MZML_ms2_ion_injection_time', 'MSALIGN_ms2_id', 'MSALIGN_precursor_intensity', 'MZML_ms2_mass_resolving_power', 'MZML_selected_ion_peak_intensity', 'MSALIGN_precursor_charge', 'TOPPIC_number_of_variable_modifications', 'TOPPIC_variable_modifications', 'MZML_ms2_scan', 'MZML_selected_ion_mz', 'MZML_ms1_mass_resolving_power', 'TOPPIC_fixed_modifications', 'TOPPIC_e-value', 'MZML_isolation_window_lower_offset', 'TOPPIC_protein_n-terminal_form', 'TOPPIC_protein_description', 'MSALIGN_feature_score', 'TOPPIC_previous_residue', 'MZML_ms1_total_ion_current', 'MZML_ms1_scan_window_upper_limit', 'TOPPIC_number_of_protein_hits', 'TOPPIC_unexpected_modifications', 'TOPPIC_last_residue_position', 'MZML_ms1_retention_time', 'MZML_ms2_scan_window_upper_limit'}) and 14 missing columns ({'FAIMS', '#PrSM_ids', '#Msalign_files', 'Dataset_id', 'Sample', 'Cysteine_protection', 'Species', 'Raw_file_name', '#Proteoform_ids', '#MS/MS_spectra', 'Dissociation', '#Protein_ids', 'Instrument', 'Separation'}).

This happened while the csv dataset builder was generating data using

hf://datasets/TopRepo/A-thaliana/toprepo_a_thaliana_spectrum_table_ms2_v1.2.0.tsv (at revision 8e0d34f2b674a4a55d9a90571f29a474deca894e), [/tmp/hf-datasets-cache/medium/datasets/83011406435754-config-parquet-and-info-TopRepo-A-thaliana-229c77ac/hub/datasets--TopRepo--A-thaliana/snapshots/8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_meta_table_v1.2.0.tsv (origin=hf://datasets/TopRepo/A-thaliana@8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_meta_table_v1.2.0.tsv), /tmp/hf-datasets-cache/medium/datasets/83011406435754-config-parquet-and-info-TopRepo-A-thaliana-229c77ac/hub/datasets--TopRepo--A-thaliana/snapshots/8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_spectrum_table_ms2_v1.2.0.tsv (origin=hf://datasets/TopRepo/A-thaliana@8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_spectrum_table_ms2_v1.2.0.tsv)]

Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)
Traceback:    Traceback (most recent call last):
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1800, in _prepare_split_single
                  writer.write_table(table)
                File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 765, in write_table
                  self._write_table(pa_table, writer_batch_size=writer_batch_size)
                File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 773, in _write_table
                  pa_table = table_cast(pa_table, self._schema)
                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2321, in table_cast
                  return cast_table_to_schema(table, schema)
                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2249, in cast_table_to_schema
                  raise CastError(
              datasets.table.CastError: Couldn't cast
              PROJECT_id: int64
              SUBDATASET_id: int64
              DATASET_id: string
              MZML_file_name: string
              MZML_instrument: string
              MZML_ms1_scan: int64
              MZML_ms1_scan_window_lower_limit: double
              MZML_ms1_scan_window_upper_limit: double
              MZML_ms1_retention_time: double
              MZML_ms1_total_ion_current: double
              MZML_ms1_mass_resolving_power: double
              MZML_ms1_ion_injection_time: double
              MZML_ms1_lowest_observed_mz: double
              MZML_ms1_highest_observed_mz: double
              MZML_ms2_scan: int64
              MZML_ms2_scan_window_lower_limit: double
              MZML_ms2_scan_window_upper_limit: double
              MZML_ms2_retention_time: double
              MZML_ms2_total_ion_current: double
              MZML_ms2_mass_resolving_power: double
              MZML_ms2_ion_injection_time: double
              MZML_ms2_lowest_observed_mz: double
              MZML_ms2_highest_observed_mz: double
              MZML_isolation_window_target_mz: double
              MZML_isolation_window_lower_offset: double
              MZML_isolation_window_upper_offset: double
              MZML_selected_ion_mz: double
              MZML_selected_ion_peak_intensity: double
              MZML_selected_ion_charge: double
              MZML_activation: string
              MZML_collision_energy: double
              MSALIGN_file_name: string
              MSALIGN_ms1_id: int64
              MSALIGN_ms2_id: int64
              MSALIGN_precursor_charge: string
              MSALIGN_precursor_monoisotopic_mass: string
              MSALIGN_precursor_intensity: string
              MSALIGN_feature_id: string
              MSALIGN_feature_intensity: string
              MSALIGN_feature_score: string
              MSALIGN_feature_apex_time: string
              MSALIGN_number_of_fragment_ions: int64
              TOPPIC_prsm_id: double
              TOPPIC_adjusted_precursor_mass: double
              TOPPIC_proteoform_id: double
              TOPPIC_proteoform_intensity: double
              TOPPIC_number_of_protein_hits: double
              TOPPIC_protein_accession: string
              TOPPIC_protein_description: string
              TOPPIC_first_residue_position: double
              TOPPIC_last_residue_position: double
              TOPPIC_special_amino_acids: double
              TOPPIC_database_sequence: string
              TOPPIC_proteoform_mass: double
              TOPPIC_protein_n-terminal_form: string
              TOPPIC_fixed_modifications: string
              TOPPIC_number_of_unexpected_modifications: double
              TOPPIC_unexpected_modifications: string
              TOPPIC_number_of_variable_modifications: double
              TOPPIC_variable_modifications: double
              TOPPIC_miscore: string
              TOPPIC_number_of_matched_experimental_fragment_ions: double
              TOPPIC_number_of_matched_theoretical_fragment_masses: double
              TOPPIC_e-value: double
              TOPPIC_spectrum-level_q-value: double
              TOPPIC_proteoform-level_q-value: double
              TOPPIC_proteoform: string
              TOPPIC_previous_residue: string
              TOPPIC_next_residue: string
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 10668
              to
              {'Dataset_id': Value('string'), 'Raw_file_name': Value('string'), 'MZML_file_name': Value('string'), '#Msalign_files': Value('int64'), '#MS/MS_spectra': Value('int64'), '#PrSM_ids': Value('int64'), '#Proteoform_ids': Value('int64'), '#Protein_ids': Value('int64'), 'Species': Value('string'), 'Instrument': Value('string'), 'Dissociation': Value('string'), 'Sample': Value('string'), 'Separation': Value('string'), 'Cysteine_protection': Value('string'), 'FAIMS': Value('string')}
              because column names don't match
              
              During handling of the above exception, another exception occurred:
              
              Traceback (most recent call last):
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1348, in compute_config_parquet_and_info_response
                  parquet_operations = convert_to_parquet(builder)
                                       ^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 980, in convert_to_parquet
                  builder.download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 882, in download_and_prepare
                  self._download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 943, in _download_and_prepare
                  self._prepare_split(split_generator, **prepare_split_kwargs)
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1646, in _prepare_split
                  for job_id, done, content in self._prepare_split_single(
                                               ^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1802, in _prepare_split_single
                  raise DatasetGenerationCastError.from_cast_error(
              datasets.exceptions.DatasetGenerationCastError: An error occurred while generating the dataset
              
              All the data files must have the same columns, but at some point there are 68 new columns ({'MZML_instrument', 'MZML_ms1_lowest_observed_mz', 'MZML_ms1_scan_window_lower_limit', 'PROJECT_id', 'TOPPIC_number_of_matched_experimental_fragment_ions', 'DATASET_id', 'TOPPIC_protein_accession', 'TOPPIC_proteoform_mass', 'MZML_ms1_scan', 'MZML_ms1_highest_observed_mz', 'TOPPIC_database_sequence', 'TOPPIC_proteoform_intensity', 'TOPPIC_special_amino_acids', 'MSALIGN_feature_apex_time', 'MZML_ms2_scan_window_lower_limit', 'MZML_isolation_window_upper_offset', 'TOPPIC_miscore', 'TOPPIC_number_of_unexpected_modifications', 'MZML_ms2_total_ion_current', 'TOPPIC_proteoform', 'TOPPIC_first_residue_position', 'TOPPIC_prsm_id', 'TOPPIC_spectrum-level_q-value', 'MZML_ms1_ion_injection_time', 'MZML_ms2_retention_time', 'MSALIGN_feature_id', 'MSALIGN_number_of_fragment_ions', 'MSALIGN_precursor_monoisotopic_mass', 'SUBDATASET_id', 'TOPPIC_next_residue', 'MZML_ms2_lowest_observed_mz', 'TOPPIC_proteoform-level_q-value', 'MZML_collision_energy', 'MZML_selected_ion_charge', 'TOPPIC_proteoform_id', 'MZML_ms2_highest_observed_mz', 'MSALIGN_feature_intensity', 'MZML_activation', 'TOPPIC_number_of_matched_theoretical_fragment_masses', 'TOPPIC_adjusted_precursor_mass', 'MZML_isolation_window_target_mz', 'MSALIGN_file_name', 'MSALIGN_ms1_id', 'MZML_ms2_ion_injection_time', 'MSALIGN_ms2_id', 'MSALIGN_precursor_intensity', 'MZML_ms2_mass_resolving_power', 'MZML_selected_ion_peak_intensity', 'MSALIGN_precursor_charge', 'TOPPIC_number_of_variable_modifications', 'TOPPIC_variable_modifications', 'MZML_ms2_scan', 'MZML_selected_ion_mz', 'MZML_ms1_mass_resolving_power', 'TOPPIC_fixed_modifications', 'TOPPIC_e-value', 'MZML_isolation_window_lower_offset', 'TOPPIC_protein_n-terminal_form', 'TOPPIC_protein_description', 'MSALIGN_feature_score', 'TOPPIC_previous_residue', 'MZML_ms1_total_ion_current', 'MZML_ms1_scan_window_upper_limit', 'TOPPIC_number_of_protein_hits', 'TOPPIC_unexpected_modifications', 'TOPPIC_last_residue_position', 'MZML_ms1_retention_time', 'MZML_ms2_scan_window_upper_limit'}) and 14 missing columns ({'FAIMS', '#PrSM_ids', '#Msalign_files', 'Dataset_id', 'Sample', 'Cysteine_protection', 'Species', 'Raw_file_name', '#Proteoform_ids', '#MS/MS_spectra', 'Dissociation', '#Protein_ids', 'Instrument', 'Separation'}).
              
              This happened while the csv dataset builder was generating data using
              
              hf://datasets/TopRepo/A-thaliana/toprepo_a_thaliana_spectrum_table_ms2_v1.2.0.tsv (at revision 8e0d34f2b674a4a55d9a90571f29a474deca894e), [/tmp/hf-datasets-cache/medium/datasets/83011406435754-config-parquet-and-info-TopRepo-A-thaliana-229c77ac/hub/datasets--TopRepo--A-thaliana/snapshots/8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_meta_table_v1.2.0.tsv (origin=hf://datasets/TopRepo/A-thaliana@8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_meta_table_v1.2.0.tsv), /tmp/hf-datasets-cache/medium/datasets/83011406435754-config-parquet-and-info-TopRepo-A-thaliana-229c77ac/hub/datasets--TopRepo--A-thaliana/snapshots/8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_spectrum_table_ms2_v1.2.0.tsv (origin=hf://datasets/TopRepo/A-thaliana@8e0d34f2b674a4a55d9a90571f29a474deca894e/toprepo_a_thaliana_spectrum_table_ms2_v1.2.0.tsv)]
              
              Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)