def test_sample_statistics_notexists(testdir, mock_testclass):
sample = 'POLR2A'
splits = ['100-110', '120-130']
s.flagstat_total = MagicMock(side_effect=[300, 200])
Bed.count_bed = MagicMock(side_effect=[150, 50, 40])
stats = s.sample_statistics(sample, splits)
assert stats[0] == sample
assert stats[1] == ''
assert stats[2] == ''
assert stats[3] == ''
assert stats[4] == ''
assert stats[5] == ''
assert len(stats) == 6
s.flagstat_total.assert_not_called()
Bed.count_bed.assert_not_called()
def test_sample_statistics(testdir, mock_testclass):
sample = 'POLR2A'
Path(sample + '.bam').touch()
Path(sample + '-filtered.bam').touch()
Path(sample + '.bed').touch()
splits = ['100-110', '120-130']
for split in splits:
Path(sample + '-' + split + '.bed').touch()
s.flagstat_total = MagicMock(side_effect=[300, 200])
Bed.count_bed = MagicMock(side_effect=[150, 50, 40])
stats = s.sample_statistics(sample, splits)
assert stats[0] == sample
assert stats[1] == 300
assert stats[2] == 200
assert stats[3] == 150 * 2
assert stats[4] == 50
assert stats[5] == 40
assert len(stats) == 6
s.flagstat_total.assert_any_call(sample + '.bam')
s.flagstat_total.assert_any_call(sample + '-filtered.bam')
Bed.count_bed.assert_any_call(sample + '.bed')
Bed.count_bed.assert_any_call(sample + '-100-110.bed')
Bed.count_bed.assert_any_call(sample + '-120-130.bed')