def get_correct_ids(correct_fh, diff_fh, match=.5):
correct_ids = get_ids(correct_fh)
# diff_ids = get_ids(diff_fh)
fixed_ids = []
for line in diff_fh:
line = line.strip().split('\t')
if line[0].startswith('#'):
fixed_ids.append('\t'.join(line))
elif line[0] in correct_ids:
fixed_ids.append('\t'.join(line))
else:
fixed_id = get_close_matches(line[0], correct_ids, 1, match)
line[0] = fixed_id[0]
line = '\t'.join(line)
fixed_ids.append(line)
# for i in diff_ids:
# fixed_id = get_close_matches(i, correct_ids, 1, match)
# if len(fixed_id) != 1:
# print 'need to do something here'
# fixed_ids.append(i[0])
# else:
# fixed_ids.append(fixed_id[0])
# diff = get_diffs(diff_ids, correct_ids)
return '\n'.join(fixed_ids)
def test_get_ids(self):
obs = get_ids(self.id_file)
exp = ['Test_ID1', 'Test_ID2']
self.assertEqual(obs, exp)
def test_get_ids(self):
obs = get_ids(self.id_file)
exp = ['Test_ID1', 'Test_ID2']
self.assertEqual(obs, exp)
