def _validate_match(self, match, field, value):
schema_registry.add('yaml_match_schema', sch.yaml_match_schema)
schema_registry.add('yaml_genomic_schema', sch.yaml_genomic_schema)
schema_registry.add('yaml_clinical_schema', sch.yaml_clinical_schema)
v = Validator(sch.yaml_match_schema)
v.validate(value[0])
if len(v.errors) > 0:
self._error(field, v.errors)
def _validate_match(self, match, field, value):
for item in value:
self.__signature_exception(item)
schema_registry.add('yaml_match_schema', data_model.yaml_match_schema)
schema_registry.add('yaml_genomic_schema', data_model.yaml_genomic_schema)
schema_registry.add('yaml_clinical_schema', data_model.yaml_clinical_schema)
v = Validator(data_model.yaml_match_schema)
v.validate(value[0])
if len(v.errors) > 0:
self._error(field, v.errors)
def _validate_match(self, match, field, value):
for item in value:
self.__signature_exception(item)
schema_registry.add('yaml_match_schema', data_model.yaml_match_schema)
schema_registry.add('yaml_genomic_schema',
data_model.yaml_genomic_schema)
schema_registry.add('yaml_clinical_schema',
data_model.yaml_clinical_schema)
v = Validator(data_model.yaml_match_schema)
v.validate(value[0])
if len(v.errors) > 0:
self._error(field, v.errors)
parent_schema_adv = schema.parent_schema.copy()
parent_schema_adv['children'] = {
'type': 'list',
'schema': {
'type': 'dict',
'schema': 'child_schema'
}
}
parent_schema_adv['match'] = {
'type': 'list',
'schema': {
'type': 'dict',
'schema': 'yaml_match_schema'
}
}
schema_registry.add('parent_schema', parent_schema_adv)
schema_registry.add('yaml_match_schema', schema.yaml_match_schema)
schema_registry.add('yaml_genomic_schema', schema.yaml_genomic_schema)
schema_registry.add('yaml_clinical_schema', schema.yaml_clinical_schema)
schema_registry.add('map', schema.map)
class MatchEngine(object):
def __init__(self, db):
# get the database.
self.db = db
# stores the complete list as easy lookup
self.all_match = set(self.db.clinical.distinct('SAMPLE_ID'))
# get mapping values between yml and db