def test_genbank_to_generator_single(self):
# test single record and uppercase sequence
for c in [Sequence, Protein]:
obs = next(_genbank_to_generator(
self.single_upper_fp, constructor=c))
exp = c(self.single[0], metadata=self.single[1],
positional_metadata=self.single[2])
self.assertEqual(exp, obs)
def test_genbank_to_generator(self):
for i, obs in enumerate(_genbank_to_generator(self.multi_fp)):
seq, md, pmd, constructor = self.multi[i]
exp = constructor(seq,
metadata=md,
lowercase=True,
positional_metadata=pmd)
self.assertEqual(exp, obs)
def test_genbank_to_generator_single(self):
# test single record and uppercase sequence
for c in [Sequence, Protein]:
obs = next(_genbank_to_generator(
self.single_upper_fp, constructor=c))
exp = c(self.single[0], metadata=self.single[1],
positional_metadata=self.single[2])
self.assertEqual(exp, obs)
def test_roundtrip_generator(self):
with io.StringIO() as fh:
_generator_to_genbank(_genbank_to_generator(self.multi_fp), fh)
obs = fh.getvalue()
with open(self.multi_fp) as fh:
exp = fh.read()
self.assertEqual(obs, exp)
def test_roundtrip_generator(self):
with io.StringIO() as fh:
_generator_to_genbank(_genbank_to_generator(self.multi_fp), fh)
obs = fh.getvalue()
with open(self.multi_fp) as fh:
exp = fh.read()
self.assertEqual(obs, exp)
def test_genbank_to_generator(self):
for i, obs in enumerate(_genbank_to_generator(self.multi_fp)):
seq, md, imd, constructor = self.multi[i]
exp = constructor(seq, metadata=md, lowercase=True,
interval_metadata=imd)
self.assertEqual(exp, obs)
