def test_converts_workflow_app_to_bidsapp(self, fake_snakemake: Path):
with (fake_snakemake / "output" / ".snakebids").open("w") as f:
json.dump({"mode": "bidsapp"}, f)
output.prepare_output(fake_snakemake / "app1",
fake_snakemake / "output", "workflow", False)
assert not (fake_snakemake / "output" / ".snakemake").exists()
(fake_snakemake / "output" / ".snakemake").touch()
out = output.prepare_output(fake_snakemake / "app1",
fake_snakemake / "output", "bidsapp", True)
assert out == fake_snakemake / "output"
assert (fake_snakemake / "output" / ".snakemake").exists()
assert out.exists()
assert dirlen(out) == 4
with (out / ".snakebids").open() as f:
assert json.load(f)["mode"] == "bidsapp"
def test_creates_new_empty_bidsapp(self, fake_snakemake: Path):
out = output.prepare_output(fake_snakemake / "app1",
fake_snakemake / "new-output", "bidsapp",
False)
assert out == fake_snakemake / "new-output"
assert out.exists()
assert dirlen(out) == 1
with (out / ".snakebids").open() as f:
assert json.load(f)["mode"] == "bidsapp"
def test_creates_new_empty_workflow_app(self, fake_snakemake: Path):
out = output.prepare_output(fake_snakemake / "app1",
fake_snakemake / "new-output", "workflow",
False)
assert out == fake_snakemake / "new-output" / "results"
assert dirlen(fake_snakemake / "new-output") == 5
assert out.exists()
assert dirlen(out) == 0
with (fake_snakemake / "new-output" / ".snakebids").open() as f:
assert json.load(f)["mode"] == "workflow"
def test_converts_bidsapp_to_workflow(self, fake_snakemake: Path):
with (fake_snakemake / "output" / ".snakebids").open("w") as f:
json.dump({"mode": "bidsapp"}, f)
out = output.prepare_output(fake_snakemake / "app1",
fake_snakemake / "output", "workflow",
False)
assert out == fake_snakemake / "output" / "results"
assert not (out / ".snakemake").exists()
assert dirlen(fake_snakemake / "output") == 5
assert out.exists()
assert dirlen(out) == 2
with (fake_snakemake / "output" / ".snakebids").open() as f:
assert json.load(f)["mode"] == "workflow"
def test_fails_when_directory_has_contents(self, fake_snakemake: Path):
with pytest.raises(RunError):
output.prepare_output(fake_snakemake / "app1",
fake_snakemake / "randomdir", "workflow",
False)