def test_template_unmapped_filter_length():
infile = gt.InputFile(testfiles["test.map.gz"])
assert 1 == len([x for x in gt.unmapped(infile, 1)]), len([x for x in gt.unmapped(infile, 1)])
assert 5 == len([x for x in gt.unmapped(infile, 0)]), len([x for x in gt.unmapped(infile, 0)])
assert 1 == len([x for x in gt.unmapped(infile, 2)]), len([x for x in gt.unmapped(infile, 2)])
assert 0 == len([x for x in gt.unmapped(infile, 3)]), len([x for x in gt.unmapped(infile, 3)])
assert 0 == len([x for x in gt.unmapped(infile, 4)]), len([x for x in gt.unmapped(infile, 4)])
def test_template_unmapped_filter_length():
infile = gt.InputFile(testfiles["test.map.gz"])
assert 1 == len([x for x in gt.unmapped(infile, 1)
]), len([x for x in gt.unmapped(infile, 1)])
assert 5 == len([x for x in gt.unmapped(infile, 0)
]), len([x for x in gt.unmapped(infile, 0)])
assert 1 == len([x for x in gt.unmapped(infile, 2)
]), len([x for x in gt.unmapped(infile, 2)])
assert 0 == len([x for x in gt.unmapped(infile, 3)
]), len([x for x in gt.unmapped(infile, 3)])
assert 0 == len([x for x in gt.unmapped(infile, 4)
]), len([x for x in gt.unmapped(infile, 4)])
def unmapped(reads, exclude=-1):
"""Yield only unmapped reads and reads
that have only mappings with mismatches >= exclude
if exclude is a nubmer between 0 and 1 we use it as a
percentage of mismatches
"""
return gt.unmapped(reads.__iter__(), exclude)
def unmapped(reads, exclude=-1):
"""Yield only unmapped reads and reads
that have only mappings with mismatches >= exclude
if exclude is a nubmer between 0 and 1 we use it as a
percentage of mismatches
"""
return gt.unmapped(reads.__iter__(), exclude)
