def test_reserved_info_field_get_fn(self): info = variants_pb2.Variant().info values = ['C'] struct_utils.set_string_field(info, 'AA', values) get_fn = vcf_constants.reserved_info_field_get_fn('AA') actual = get_fn(info, 'AA') self.assertEqual(actual, values[0])
def test_reserved_info_field_get_fn(self): info = variants_pb2.Variant().info values = ['C'] struct_utils.set_string_field(info, 'AA', values) get_fn = vcf_constants.reserved_info_field_get_fn('AA') actual = get_fn(info, 'AA') self.assertEqual(actual, values[0])
def test_set_string_field(self, initial_fields, value): list_value, num_values = _wrapped_value_and_num(value) field_map = _set_protomap_from_dict(initial_fields) struct_utils.set_string_field(field_map, 'field', value) self.assertIn('field', field_map) self.assertLen(field_map['field'].values, num_values) self.assertEqual([v.string_value for v in field_map['field'].values], list_value)
def test_get_string_field(self, value, is_single_field, expected): key = 'field' field_map = _set_protomap_from_dict({}) struct_utils.set_string_field(field_map, key, value) actual = struct_utils.get_string_field(field_map, key, is_single_field) self.assertEqual(actual, expected)
def set_bam_fname(variant_call, bam_fname): """Sets 'BAM_FNAME' field of the VariantCall.""" return struct_utils.set_string_field(variant_call.info, 'BAM_FNAME', bam_fname)