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[pre-commit.ci] auto fixes from pre-commit.com hooks
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pre-commit-ci[bot] committed Mar 21, 2024
1 parent f3dee1b commit 8278e57
Showing 1 changed file with 8 additions and 8 deletions.
16 changes: 8 additions & 8 deletions tests/docker_yaml_conversion_specification_cli.py
Original file line number Diff line number Diff line change
Expand Up @@ -124,25 +124,25 @@ def test_run_conversion_from_yaml_default_nwbfile_name(self):
assert nwbfile.subject.subject_id == "Subject Name"
assert "spike_times" in nwbfile.units


def test_run_conversion_from_yaml_variable(self):
path_to_test_yml_files = Path(__file__).parent / "conversion_specifications"
yaml_file_path = path_to_test_yml_files / "GIN_conversion_specification.yml"

with open(file=yaml_file_path, mode="r") as io:
yaml_lines = io.readlines()

yaml_string = "".join(yaml_lines)
os.environ["NEUROCONV_YAML"] = yaml_string
os.environ["NEUROCONV_DATA_PATH"] = DATA_PATH
os.environ["NEUROCONV_OUTPUT_PATH"] = OUTPUT_PATH

deploy_process(
command=(
"docker run -t " f"--volume {self.source_volume}:/neuroconv ghcr.io/catalystneuro/neuroconv:yaml_variable"
"docker run -t "
f"--volume {self.source_volume}:/neuroconv ghcr.io/catalystneuro/neuroconv:yaml_variable"
)
)

nwbfile_path = self.test_folder / "example_converter_spec_1.nwb"
assert nwbfile_path.exists(), f"`run_conversion_from_yaml` failed to create the file at '{nwbfile_path}'! "
with NWBHDF5IO(path=nwbfile_path, mode="r") as io:
Expand All @@ -153,7 +153,7 @@ def test_run_conversion_from_yaml_variable(self):
assert nwbfile.session_start_time == datetime.fromisoformat("2020-10-09T21:19:09+00:00")
assert nwbfile.subject.subject_id == "1"
assert "ElectricalSeriesAP" in nwbfile.acquisition

nwbfile_path = self.test_folder / "example_converter_spec_2.nwb"
assert nwbfile_path.exists(), f"`run_conversion_from_yaml` failed to create the file at '{nwbfile_path}'! "
with NWBHDF5IO(path=nwbfile_path, mode="r") as io:
Expand All @@ -163,7 +163,7 @@ def test_run_conversion_from_yaml_variable(self):
assert nwbfile.institution == "My Institution"
assert nwbfile.session_start_time == datetime.fromisoformat("2020-10-10T21:19:09+00:00")
assert nwbfile.subject.subject_id == "002"

nwbfile_path = self.test_folder / "example_converter_spec_3.nwb"
assert nwbfile_path.exists(), f"`run_conversion_from_yaml` failed to create the file at '{nwbfile_path}'! "
with NWBHDF5IO(path=nwbfile_path, mode="r") as io:
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