# -*- coding: utf-8 -*-

# These terms are used by the function that creates a variant query dictionary in adapters

# Always respected. Always added as top level,
# with implicit '$and'
FUNDAMENTAL_CRITERIA = [
    'case_id',
    'variant_ids',
    'category',
    'variant_type',
    'hgnc_symbols',
    'gene_panels',
    'chrom',
    'start',
    'end',
    'variant_ids'
]

# If there is only one primary criterion given without any secondary, it will also be
# added as a top level '$and'.
# Otherwise, primary criteria are added as a high level '$or' and all secondary criteria
# are joined together with them as a single lower level '$and'.
PRIMARY_CRITERIA = [
    'clinsig'
]

# Secondary, excluding filter criteria will hide variants in general,
# but can be overridden by an including, major filter criteria
# such as a Pathogenic ClinSig.
SECONDARY_CRITERIA = [
    'gnomad_frequency',
    'local_obs',
    'clingen_ngi',
    'swegen',
    'spidex_human',
    'cadd_score',
    'genetic_models',
    'functional_annotations',
    'region_annotations',
    'size',
    'svtype',
    'decipher',
    'depth',
    'alt_count',
    'control_frequency',
    'mvl_tag'
]
