def test_sam_and_bam_detection(tmpdir):
prev = tmpdir.chdir()
sam = tmpdir.join('bad.sam')
sam.ensure()
crs = ci.CheckResult(sam)
assert checks.sam_should_compress(sam) == 'PROB_SAM_SHOULD_COMPRESS'
crs.add_problem(checks.sam_should_compress(sam))
bam = tmpdir.join('bad.bam')
bam.ensure()
assert checks.sam_should_compress(bam) == 'PROB_SAM_AND_BAM_EXIST'
prev.chdir()
def test_sam_and_bam_detection(tmpdir):
prev = tmpdir.chdir()
sam = tmpdir.join('bad.sam')
sam.ensure()
crs = ci.CheckResult(sam)
assert checks.sam_should_compress(sam) == 'PROB_SAM_SHOULD_COMPRESS'
crs.add_problem(checks.sam_should_compress(sam))
bam = tmpdir.join('bad.bam')
bam.ensure()
assert checks.sam_should_compress(bam) == 'PROB_SAM_AND_BAM_EXIST'
prev.chdir()
def test_sam_raw_file_detection(tmpdir):
prev = tmpdir.chdir()
bad = tmpdir.join('bad.sam')
bad.ensure()
cr = ci.CheckResult(bad)
cr.add_problem(checks.sam_should_compress(bad))
# Check raw file
assert cr.problems.pop()
prev.chdir()
def test_sam_raw_file_detection(tmpdir):
prev = tmpdir.chdir()
bad = tmpdir.join('bad.sam')
bad.ensure()
cr = ci.CheckResult(bad)
cr.add_problem(checks.sam_should_compress(bad))
# Check raw file
assert cr.problems.pop()
prev.chdir()
