def test_peptide():
input = os.path.join(here, 'cli_input_peptide.csv')
output = 'test_cli_output.csv'
args = ArgparseMock(input, output, peptide=True)
run_main(args)
with open(output, 'r') as fh:
rows = [r for r in csv.reader(fh)]
print(rows)
assert rows[1][2] == 'True'
assert rows[2][2] == 'False'
def test_options():
input = os.path.join(here, 'cli_input.csv')
output = 'test_cli_output.csv'
args = ArgparseMock(input, output, no_methionine_offset=True)
run_main(args)
with open(output, 'r') as fh:
rows = [r for r in csv.reader(fh)]
assert rows[1][-2] == 'INFERRED_MOUSE_SITE'
assert rows[2][-2] == 'NO_MAPPING_FOUND'
assert rows[3][-2] == 'VALID'
assert rows[4][-2] == 'NO_MAPPING_FOUND'
def test_default():
input = os.path.join(here, 'cli_input.csv')
output = os.path.join(here, 'test_output.csv')
args = ArgparseMock(input, output)
run_main(args)
with open(output, 'r') as fh:
rows = [r for r in csv.reader(fh)]
assert rows[1][-2] == 'INFERRED_MOUSE_SITE'
assert rows[2][-2] == 'INFERRED_METHIONINE_CLEAVAGE'
assert rows[3][-2] == 'VALID'
assert rows[4][-2] == 'NO_MAPPING_FOUND'