def test_cdhit_empty_input(self): samtools = tools.samtools.SamtoolsTool() empty_bam = os.path.join(util.file.get_test_input_path(), 'empty.bam') output_bam = util.file.mkstempfname("output.bam") read_utils.rmdup_cdhit_bam( empty_bam, output_bam ) self.assertEqual(samtools.count(output_bam), 0)
def test_cdhit_empty_input(self): samtools = tools.samtools.SamtoolsTool() empty_bam = os.path.join(util.file.get_test_input_path(), 'empty.bam') output_bam = util.file.mkstempfname("output.bam") read_utils.rmdup_cdhit_bam( empty_bam, output_bam ) self.assertEqual(samtools.count(output_bam), 0)
def test_cdhit_canned_input(self): samtools = tools.samtools.SamtoolsTool() input_bam = os.path.join(util.file.get_test_input_path(self), 'input.bam') expected_bam = os.path.join(util.file.get_test_input_path(self), 'expected.bam') output_bam = util.file.mkstempfname("output.bam") read_utils.rmdup_cdhit_bam(input_bam, output_bam) self.assertEqual(samtools.count(output_bam), 1772)
def test_cdhit_canned_input(self): samtools = tools.samtools.SamtoolsTool() input_bam = os.path.join(util.file.get_test_input_path(self), 'input.bam') expected_bam = os.path.join(util.file.get_test_input_path(self), 'expected.bam') output_bam = util.file.mkstempfname("output.bam") read_utils.rmdup_cdhit_bam( input_bam, output_bam ) self.assertEqual(samtools.count(output_bam), 1772)