def test_prog():
try:
converter.main([prog])
assert False
except SystemExit:
pass
else:
raise Exception
def test_help():
try:
converter.main([prog, '--help'])
assert False
except SystemExit:
pass
else:
raise Exception
def test_version():
try:
converter.main([prog, '--version'])
assert False
except SystemExit:
pass
else:
raise Exception
def test_input_output():
infile = biokit_data("converters/measles.sorted.bam")
with TempFile(suffix=".bed") as outfile:
try:
converter.main(
[prog, infile, outfile.name, "--logging-level", "ERROR"])
except Exception:
raise Exception
# Test the input-format option
with TempFile(suffix=".bed") as outfile:
try:
converter.main([
prog, infile, outfile.name, '--input-format', "bam",
"--logging-level", "ERROR"
])
except:
assert False
# Test wrong output format
with TempFile(suffix=".bedd") as outfile:
try:
converter.main([prog, infile, outfile.name])
assert False
except SystemExit:
assert True
def test_formats():
try:
converter.main([prog, "--formats"])
except SystemExit:
pass