def test_duplicate_labels(self):
msa = TabularMSA([CustomSequence('foo'),
CustomSequence('bar')], index=['a', 'a'])
with self.assertRaisesRegex(ClustalFormatError, "index.*unique"):
with StringIO() as fh:
_tabular_msa_to_clustal(msa, fh)
def test_valid_tabular_msa_to_clustal_and_clustal_to_tabular_msa(self):
for valid_out in self.valid_clustal_out:
result_before = _clustal_to_tabular_msa(valid_out,
constructor=CustomSequence)
with StringIO() as fh:
_tabular_msa_to_clustal(result_before, fh)
fh.seek(0)
result_after = _clustal_to_tabular_msa(
fh, constructor=CustomSequence)
self.assertEqual(result_before, result_after)
def test_valid_tabular_msa_to_clustal_and_clustal_to_tabular_msa(self):
for valid_out in self.valid_clustal_out:
result_before = _clustal_to_tabular_msa(
valid_out, constructor=CustomSequence)
with StringIO() as fh:
_tabular_msa_to_clustal(result_before, fh)
fh.seek(0)
result_after = _clustal_to_tabular_msa(
fh, constructor=CustomSequence)
self.assertEqual(result_before, result_after)
