def test_split_samples(testdir, mock_testclass): samples = Path(__file__).parent.joinpath('samples.txt') ss.split_sample = MagicMock() ss.split_samples(samples) ss.split_sample.assert_any_call('POLR2A', 10, 100, 500) ss.split_sample.assert_any_call('ASDURF', 10, 100, 500) ss.split_sample.assert_any_call('POLR1C', 10, 100, 500)
def test_split_sample(testdir, mock_testclass): sample = 'POLR2A' bed = sample + '.bed' ss.filter_bed_by_length = MagicMock() binlength = 10 binminlength = 100 binmaxlength = 200 ss.split_sample(sample, binlength, binminlength, binmaxlength) ss.filter_bed_by_length.assert_any_call(bed, sample + '-100-110.bed', 100, 110) ss.filter_bed_by_length.assert_any_call(bed, sample + '-110-120.bed', 110, 120) ss.filter_bed_by_length.assert_any_call(bed, sample + '-120-130.bed', 120, 130) ss.filter_bed_by_length.assert_any_call(bed, sample + '-130-140.bed', 130, 140) ss.filter_bed_by_length.assert_any_call(bed, sample + '-140-150.bed', 140, 150) ss.filter_bed_by_length.assert_any_call(bed, sample + '-150-160.bed', 150, 160) ss.filter_bed_by_length.assert_any_call(bed, sample + '-160-170.bed', 160, 170) ss.filter_bed_by_length.assert_any_call(bed, sample + '-170-180.bed', 170, 180) ss.filter_bed_by_length.assert_any_call(bed, sample + '-180-190.bed', 180, 190) ss.filter_bed_by_length.assert_any_call(bed, sample + '-190-200.bed', 190, 200) assert ss.filter_bed_by_length.call_count == 10
def test_split_samples_second_parameters(testdir, mock_testclass): samples = Path(__file__).parent.joinpath('samples.txt') ss.split_sample = MagicMock() binlength = 20 binminlength = 200 binmaxlength = 400 ss.split_samples(samples, 1, binlength, binminlength, binmaxlength) ss.split_sample.assert_called_once_with('ASDURF', binlength, binminlength, binmaxlength)
def test_filter_bed_by_length_3(testdir, mock_testclass): bed = Path(__file__).parent.joinpath('sample-slowsplit.bed') out = 'out.bed' bin_start = 100 bin_end = 110 ss.filter_bed_by_length(bed, out, bin_start, bin_end) with open(out, 'r') as infile: assert infile.readline() == 'chr4\t800\t900\ttest4\t4\t+\n' assert infile.readline() == ''
def test_split_sample_largerbin(testdir, mock_testclass): sample = 'POLR2A' bed = sample + '.bed' ss.filter_bed_by_length = MagicMock() binlength = 100 binminlength = 110 binmaxlength = 190 ss.split_sample(sample, binlength, binminlength, binmaxlength) ss.filter_bed_by_length.assert_called_once_with(bed, sample + '-110-190.bed', 110, 190)
def test_split_samples_parameters(testdir, mock_testclass): samples = Path(__file__).parent.joinpath('samples.txt') ss.split_sample = MagicMock() binlength = 20 binminlength = 200 binmaxlength = 400 ss.split_samples(samples, binlength=binlength, binminlength=binminlength, binmaxlength=binmaxlength) ss.split_sample.assert_any_call('POLR2A', binlength, binminlength, binmaxlength) ss.split_sample.assert_any_call('ASDURF', binlength, binminlength, binmaxlength) ss.split_sample.assert_any_call('POLR1C', binlength, binminlength, binmaxlength)
def test_split_sample_shorterlastbin(testdir, mock_testclass): sample = 'POLR2A' bed = sample + '.bed' ss.filter_bed_by_length = MagicMock() binlength = 10 binminlength = 155 binmaxlength = 200 ss.split_sample(sample, binlength, binminlength, binmaxlength) ss.filter_bed_by_length.assert_any_call(bed, sample + '-155-165.bed', 155, 165) ss.filter_bed_by_length.assert_any_call(bed, sample + '-165-175.bed', 165, 175) ss.filter_bed_by_length.assert_any_call(bed, sample + '-175-185.bed', 175, 185) ss.filter_bed_by_length.assert_any_call(bed, sample + '-185-195.bed', 185, 195) ss.filter_bed_by_length.assert_any_call(bed, sample + '-195-200.bed', 195, 200) assert ss.filter_bed_by_length.call_count == 5
def test_split_samples_second(testdir, mock_testclass): samples = Path(__file__).parent.joinpath('samples.txt') ss.split_sample = MagicMock() ss.split_samples(samples, 1) ss.split_sample.assert_called_once_with('ASDURF', 10, 100, 500)