def _read_sts(line): """Reads STS lines: format is in the full docstring. Format: Name|Chromosome|StsId|Segment|SequenceKnown|Evidence """ return MappedRecord(sts_wrapper(line))
def __init__(self, *args, **kwargs): """Returns new Info object. Creates DbRefs if necessary.""" temp = dict(*args, **kwargs) if "Refs" in temp: refs = temp["Refs"] if not isinstance(refs, DbRefs): refs = DbRefs(refs) else: refs = DbRefs() # move keys into refs if they belong there: allows init from flat dict for key, val in list(temp.items()): if key in KnownDatabases: refs[key] = val del temp[key] Delegator.__init__(self, refs) self["Refs"] = refs MappedRecord.__init__(self, temp)
def _read_cdd(line): """Reads CDD lines: format is Name|Key|Score|EValue|BitScore.""" return MappedRecord(cdd_wrapper(line))
def _read_map(line): """Reads MAP lines: format is Location|Source|Type.""" return MappedRecord(map_wrapper(line))
def test_init_data(self): """MappedRecord should work like normal dict init""" exp = {"a": 3, "b": 4} self.assertEqual(MappedRecord({"a": 3, "b": 4}), exp) self.assertEqual(MappedRecord(a=3, b=4), exp) self.assertEqual(MappedRecord([["a", 3], ["b", 4]]), exp)
def test_init_empty(self): """MappedRecord empty init should work OK""" g = MappedRecord() self.assertEqual(g, {})
def setUp(self): """Define a few standard MappedRecords""" self.empty = MappedRecord() self.single = MappedRecord({"a": 3}) self.several = MappedRecord(a=4, b=5, c="a", d=[1, 2, 3])