def test_reduce_msa(test_data):
msa = MSA(read_msa(str(test_data / 'test_reduce.msa')))
reduced_alignment = reduce_alignment(msa.alignment)
for i, line in enumerate(reduced_alignment):
assert len(line) == 4 and \
''.join(line) == ''.join(
msa.alignment[i])[:msa.alignment[i].index('(')]
def test_normalize_alignment(test_data):
msa = MSA(read_msa(str(test_data / 'harry_unnormal.msa')))
for line in msa.alignment[1:]:
assert len(line) == len(msa.alignment[0])
def test_read_msa(test_data):
msa = MSA(read_msa(str(test_data / 'harry.msa')))
assert hasattr(msa, 'seqs')