def test_unmapped_filter(self):
reads = Reads(self.lambda_sam1_file)
l = len(reads)
unmapped_filter = UnmappedFilter(
reads.add_mask_description("unmapped", "Filter unmapped reads"))
reads.filter(unmapped_filter)
assert len(reads) < l
reads.close()
def test_contaminant_filter(self):
reads = Reads(self.lambda_sam1_file)
l = len(reads)
contaminant = Reads(self.lambda_sam1_contaminant_file)
contaminant_filter = ContaminantFilter(contaminant)
reads.filter(contaminant_filter)
assert len(reads) == l - 9
reads.close()
contaminant.close()
