def test_correct_barcode_bitwise(self):
""" correct_barcode should correctly assign barcode to 2nd possibility,
2 base errors,
3 bit errors with this nt_to_bits
"""
nt_to_bits = {"A": "11", "C": "00", "T": "10", "G": "01"}
original = "ATTTTTTTTTCG"
recieved = "ATTTTTTTTTTT"
possibilities = ["TGTATTCGTGTA", "ATTTTTTTTTCG", "TGTAGGCGTGTA", "TGTAGAAGTGTA", "TGTAGGCGTATA", "TGTAAAAAAAAA"]
decoded, num_errors = barcode.correct_barcode_bitwise(recieved, possibilities, nt_to_bits)
self.assertEqual(decoded, original)
self.assertEqual(num_errors, 3)
def test_correct_barcode_bitwise_tie(self):
""" correct_barcode should not assign barcode to to a tie situation
"""
nt_to_bits = { "A":"11", "C":"00", "T":"10", "G":"01"}
#~ original = 'ATTTTTTTTTCG' #doesn't matter, last entry is just
# as close to recieved as original is
recieved = 'ATTTTTTTTTTT'
possibilities = ['TGTATTCGTGTA','ATTTTTTTTTCG','TGTAGGCGTGTA',
'TGTAGAAGTGTA','TGTAGGCGTATA','TGTAAAAAAAAA', 'ATTTTTTTTAAA']
decoded, num_errors = barcode.correct_barcode_bitwise(\
recieved, possibilities, nt_to_bits)
self.assertEqual(decoded, None)
self.assertEqual(num_errors, 3)
def test_correct_barcode_bitwise_tie(self):
""" correct_barcode should not assign barcode to to a tie situation
"""
nt_to_bits = {"A": "11", "C": "00", "T": "10", "G": "01"}
# ~ original = 'ATTTTTTTTTCG' #doesn't matter, last entry is just
# as close to recieved as original is
recieved = 'ATTTTTTTTTTT'
possibilities = ['TGTATTCGTGTA', 'ATTTTTTTTTCG', 'TGTAGGCGTGTA',
'TGTAGAAGTGTA', 'TGTAGGCGTATA', 'TGTAAAAAAAAA', 'ATTTTTTTTAAA']
decoded, num_errors = barcode.correct_barcode_bitwise(
recieved, possibilities, nt_to_bits)
self.assertEqual(decoded, None)
self.assertEqual(num_errors, 3)
def test_correct_barcode_bitwise(self):
""" correct_barcode should correctly assign barcode to 2nd possibility,
2 base errors,
3 bit errors with this nt_to_bits
"""
nt_to_bits = {"A": "11", "C": "00", "T": "10", "G": "01"}
original = 'ATTTTTTTTTCG'
recieved = 'ATTTTTTTTTTT'
possibilities = ['TGTATTCGTGTA', 'ATTTTTTTTTCG', 'TGTAGGCGTGTA',
'TGTAGAAGTGTA', 'TGTAGGCGTATA', 'TGTAAAAAAAAA']
decoded, num_errors = barcode.correct_barcode_bitwise(
recieved, possibilities, nt_to_bits)
self.assertEqual(decoded, original)
self.assertEqual(num_errors, 3)