def test_tal_sequence(self):
"""
Segment TAL sequence.
"""
result = pfusx.tal_to_codons('ATACCRTCTTATTT')
expected = ['ATA', 'CCR', 'TCT', 'TAT', 'TT']
self.assertEqual(result, expected)
def test_tal_sequence_sixteen(self):
"""
Segment 16-character TAL sequence.
"""
result = pfusx.tal_to_codons('ATACCRTCTTATTTA')
expected = ['ATA', 'CCR', 'TCT', 'TAT', 'TTA']
self.assertEqual(result, expected)
def test_tal_sequence_sixteen(self):
"""
Segment 16-character TAL sequence.
"""
result = pfusx.tal_to_codons('ATACCRTCTTATTTA')
expected = ['ATA', 'CCR', 'TCT', 'TAT', 'TTA']
self.assertEqual(result, expected)
def test_tal_sequence(self):
"""
Segment TAL sequence.
"""
result = pfusx.tal_to_codons('ATACCRTCTTATTT')
expected = ['ATA', 'CCR', 'TCT', 'TAT', 'TT']
self.assertEqual(result, expected)
def test_fusx_query(self):
"""
Query FusX database to find the well positions of necessary plasmids.
"""
# Example from the FusX PHP script at <http://talendesign.org>.
rvd = pfusx.rvd_to_tal('NI NG NI HD HD NN NG HD NG NG NI NG NG NG NG')
sequences = pfusx.tal_to_codons(rvd)
result = pfusx.get_fusx_locations(sequences)
expected = [
('pFX1', 'E2'), ('pFX2', 'G3'), ('pFX3', 'H7'), ('pFX4', 'D7'),
('pB2/B3', 'H12')
]
self.assertEqual(result, expected)
def test_invalid_tal_sequence(self):
with self.assertRaises(ValueError):
pfusx.tal_to_codons('HELLO :)')
def test_invalid_tal_sequence(self):
with self.assertRaises(ValueError):
pfusx.tal_to_codons('HELLO :)')