PEVE_VERSION = "1.1.0"
THRESHOLD_VERSION = "2024-01"

MODELS = {
    "splice":  "nileshhanotia/mutation-predictor-splice",
    "context": "nileshhanotia/mutation-predictor-v4",
    "protein": "nileshhanotia/mutation-pathogenicity-predictor",
}

SPLICE_PROB_HIGH        = 0.90
SPLICE_PROB_MODERATE    = 0.80
SPLICE_PROB_WEAK        = 0.60
SPLICE_SIGNAL_MIN       = 0.65
SPLICE_DOMINANT_MIN     = SPLICE_PROB_HIGH

ACTIVATION_NORM_HIGH     = 0.80
ACTIVATION_NORM_MODERATE = 0.70
ACTIVATION_NORM_WEAK     = 0.60
CONTEXT_ACTIVE_MIN       = ACTIVATION_NORM_MODERATE

SEQUENCE_WINDOW         = 401
WINDOW_BP               = 401
WINDOW_HALF             = WINDOW_BP // 2
PEAK_OFF_CENTER_FRAC    = 0.10

BIOCHEMICAL_RISK_ACTIVE  = 0.60
AF_RARITY_THRESHOLD      = 0.001
AF_HIGH_CONFLICT         = 0.010
BOUNDARY_TOLERANCE       = 0.05

VEP_CONSEQUENCE_MAP = {
    "missense_variant":             "substitution_missense",
    "synonymous_variant":           "substitution_synonymous",
    "stop_gained":                  "stop_gained",
    "stop_lost":                    "stop_gained",
    "start_lost":                   "start_lost",
    "frameshift_variant":           "frameshift",
    "inframe_insertion":            "in_frame_indel",
    "inframe_deletion":             "in_frame_indel",
    "splice_donor_variant":         "canonical_splice",
    "splice_acceptor_variant":      "canonical_splice",
    "splice_region_variant":        "canonical_splice",
    "intron_variant":               "deep_intronic",
    "5_prime_utr_variant":          "utr_regulatory",
    "3_prime_utr_variant":          "utr_regulatory",
    "upstream_gene_variant":        "utr_regulatory",
    "downstream_gene_variant":      "utr_regulatory",
    "regulatory_region_variant":    "utr_regulatory",
}

L3_SUBSTITUTION_INVALID = {
    "frameshift", "stop_gained", "start_lost", "canonical_splice",
    "in_frame_indel", "deep_intronic", "utr_regulatory",
}

GNOMAD_VERSION = "4.0"
AF_POPULATIONS = ["afr", "amr", "asj", "eas", "fin", "mid", "nfe", "sas"]

BAND_COLORS = {
    "High":         "#d73027",
    "Moderate":     "#fc8d59",
    "Weak":         "#fee090",
    "Inactive":     "#abd9e9",
    "Active":       "#4575b4",
    "Insufficient": "#aaaaaa",
}