def test_combine_hits():
"""this will ensure that all pairs of coordinates are in the correct order (lowest to
highest for + strand hits; highest to lowest for - strand hits"""
args = parse_args((os.path.join(test_dir, 'test.tblastn'), os.path.join(test_dir, 'test.fa')))
results = top_query(args)
for result in results:
coords = combine_hits(result)
print coords
if coords[0][0] < coords[0][1]:
for x in range(len(coords)-1):
assert coords[x][0] > coords[x+1][0]
else:
for x in range(len(coords)-1):
assert coords[x][0] < coords[x+1][0]
def test_top_query(): #I can add to this to test the evalue filtering args = parse_args((os.path.join(test_dir, 'test.tblastn'), os.path.join(test_dir, 'test.fa'))) results = top_query(args) assert len(results) == 11 assert len(results[0]) == 12 assert results[0][0]['pident'] == 61.77
