def test_parse3(self):
with data_stream("pfam_example.txt") as f:
seqs = stockholm_io.read(f)
self.assertEqual(len(seqs), 24)
self.assertEqual(seqs[5].name, "ENV_HV2BE/24-510")
self.assertEqual(len(seqs[1]), 606)
self.assertEqual(str(seqs[0][-6:]), 'TSRNKR')
def test_parse3(self) :
with testdata_stream("pfam_example.txt") as f:
seqs = stockholm_io.read(f)
self.assertEqual(len(seqs), 24)
self.assertEqual(seqs[5].name, "ENV_HV2BE/24-510")
self.assertEqual(len(seqs[1]), 606)
self.assertEqual( str(seqs[0][-6:]) , 'TSRNKR')
def test_parse2(self):
f = StringIO(stockholm_io.example)
seqs = stockholm_io.read(f)
self.assertEqual(len(seqs), 5)
self.assertEqual(seqs[1].name, "O83071/259-312")
self.assertEqual(len(seqs[1]), 43)
def test_parse1(self):
with data_stream("pfam.txt") as f:
seqs = stockholm_io.read(f)
# self.assertEqual(len(seqs), 7)
self.assertEqual(seqs[1].name, "O61132/1-232")
self.assertEqual(len(seqs[1]), 265)
def test_parse2(self) :
f= StringIO(stockholm_io.example)
seqs = stockholm_io.read(f)
self.assertEqual(len(seqs), 5)
self.assertEqual(seqs[1].name, "O83071/259-312")
self.assertEqual(len(seqs[1]), 43)
def test_parse1(self) :
with testdata_stream("pfam.txt") as f:
seqs = stockholm_io.read(f)
#self.assertEqual(len(seqs), 7)
self.assertEqual(seqs[1].name, "O61132/1-232")
self.assertEqual(len(seqs[1]), 265)