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)