def test_process_args_expected_keywords(self, args):
res = process_args(args)
expected_keys = [
"input_file",
"output_file",
"input_file_format",
"output_file_format",
"complement",
"gaps",
"mode",
"use_log",
]
assert sorted(res.keys()) == sorted(expected_keys)
def test_process_args_default_use_logs(self, args):
args.log = None
res = process_args(args)
assert res["use_log"] is False
def test_process_args_default_output_file(self, args):
args.output = None
res = process_args(args)
assert res["output_file"] == f"{args.input}.clipkit"
def test_process_args_default_gaps(self, args):
res = process_args(args)
assert res["gaps"] == 0.9
def test_process_args_default_complementary(self, args):
args.complementary = None
res = process_args(args)
assert res["complement"] is False
def test_process_args_default_mode(self, args):
res = process_args(args)
assert res["mode"] == TrimmingMode.gappy
def test_process_args_in_equals_out(self, args):
args.output = args.input
with pytest.raises(SystemExit):
process_args(args)
def test_process_args_input_file_dne(self, args):
args.input = "some/file/that/doesnt/exist"
with pytest.raises(SystemExit):
process_args(args)