def set_info(variant, field_name, value, vcf_object=None):
"""Sets a field of the info map of the `Variant` to the given value(s).
`variant.info` is analogous to the INFO field of a VCF record.
Args:
variant: Variant proto. The Variant to modify.
field_name: str. The name of the field to set.
value: A single value or list of values to update the Variant with. The type
of the value is determined by the `vcf_object` if one is given, otherwise
is looked up based on the reserved INFO fields in the VCF specification.
vcf_object: (Optional) A VcfReader or VcfWriter object. If not None, the
type of the field is inferred from the associated VcfReader or VcfWriter
based on its name. Otherwise, the type is inferred if it is a reserved
field.
"""
if vcf_object is None:
set_field_fn = vcf_constants.reserved_info_field_set_fn(field_name)
else:
set_field_fn = vcf_object.field_access_cache.info_field_set_fn(field_name)
set_field_fn(variant.info, field_name, value)
def test_invalid_reserved_info_field_set_fn(self, field):
with self.assertRaisesRegexp(ValueError,
'Unknown reserved INFO field:'):
vcf_constants.reserved_info_field_set_fn(field)
def test_reserved_info_field_set_fn(self, field, expected):
actual = vcf_constants.reserved_info_field_set_fn(field)
self.assertIs(actual, expected)
