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chore: bump pre-commit hook versions #881

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74d05fb
updating the dependencies for linitng
sevmag May 3, 2026
258b6bd
pre-commit run --all
sevmag May 3, 2026
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8 changes: 4 additions & 4 deletions .github/workflows/build.yml
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Expand Up @@ -75,7 +75,7 @@ jobs:
sudo apt update --fix-missing --yes
sudo apt upgrade --yes
sudo apt-get install --yes git
sudo apt-get clean
sudo apt-get clean

- uses: actions/checkout@v4

Expand All @@ -88,9 +88,9 @@ jobs:
python --version
pip show setuptools
rm -rf ~/.cache/pip

- name: Print available disk space before graphnet install
run: |
run: |
df -h
- name: Upgrade packages in virtual environment
shell: bash
Expand Down Expand Up @@ -128,7 +128,7 @@ jobs:
pip show torch-scatter
pip show jammy_flows
- name: Print available disk space after graphnet install
run: |
run: |
df -h
- name: Run unit tests and generate coverage report
shell: bash
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8 changes: 4 additions & 4 deletions .pre-commit-config.yaml
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@@ -1,13 +1,13 @@
exclude: '^(versioneer.py|src/graphnet/_version.py|docs/)'
repos:
- repo: https://github.com/psf/black
rev: 24.10.0
rev: 26.3.1
hooks:
- id: black
language_version: python3
args: [--config=black.toml]
- repo: https://github.com/pycqa/flake8
rev: 7.1.1
rev: 7.3.0
hooks:
- id: flake8
args: ["--config=.flake8", "--show-source", "--statistics"]
Expand All @@ -22,13 +22,13 @@ repos:
- id: pydocstyle
language_version: python3
- repo: https://github.com/pre-commit/mirrors-mypy
rev: v1.13.0
rev: v1.20.2
hooks:
- id: mypy
args: [--follow-imports=silent, --disallow-untyped-defs, --disallow-incomplete-defs, --disallow-untyped-calls]
language_version: python3
- repo: https://github.com/pre-commit/pre-commit-hooks
rev: v4.6.0
rev: v6.0.0
hooks:
- id: trailing-whitespace
- id: end-of-file-fixer
1 change: 0 additions & 1 deletion docker/gnn-benchmarking/apply.py
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Expand Up @@ -15,7 +15,6 @@
from graphnet.data.constants import FEATURES
from graphnet.constants import PRETRAINED_MODEL_DIR


# Constants
MODEL_NAME = "total_neutrino_energy"
BASE_PATH = f"{PRETRAINED_MODEL_DIR}/icecube/upgrade/QUESO"
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6 changes: 2 additions & 4 deletions examples/01_icetray/01_convert_i3_files.py
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Expand Up @@ -160,11 +160,9 @@ def main_icecube_upgrade(
if not has_icecube_package():
Logger(log_folder=None).error(ERROR_MESSAGE_MISSING_ICETRAY)
else:
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert I3 files to an intermediate format.
"""
)
""")

parser.add_argument(
"backend",
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6 changes: 2 additions & 4 deletions examples/01_icetray/02_compare_sqlite_and_parquet.py
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Expand Up @@ -88,12 +88,10 @@ def load_data() -> None:

else:
# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert I3 files to both SQLite and Parquet formats, and see that the results
agree.
"""
)
""")

args, unknown = parser.parse_known_args()

Expand Down
6 changes: 2 additions & 4 deletions examples/01_icetray/03_i3_deployer_example.py
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Expand Up @@ -87,11 +87,9 @@ def main() -> None:

else:
# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Use GraphNeTI3Modules to deploy trained model with GraphNeTI3Deployer.
"""
)
""")

args, unknown = parser.parse_known_args()

Expand Down
6 changes: 2 additions & 4 deletions examples/01_icetray/04_i3_module_in_native_icetray_example.py
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Expand Up @@ -119,11 +119,9 @@ def main() -> None:

else:
# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Use GraphNeTI3Modules to deploy trained model in native IceTray.
"""
)
""")

args, unknown = parser.parse_known_args()

Expand Down
6 changes: 2 additions & 4 deletions examples/01_icetray/05_convert_i3_files_advanced.py
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Expand Up @@ -187,11 +187,9 @@ def main(
Logger(log_folder=None).error(ERROR_MESSAGE_MISSING_ICETRAY)
else:
# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert I3 files to an intermediate format.
"""
)
""")

parser.add_argument("--merge", type=bool, default=True)
parser.add_argument("--remove", type=bool, default=True)
Expand Down
6 changes: 2 additions & 4 deletions examples/02_data/01_read_dataset.py
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Expand Up @@ -107,11 +107,9 @@ def main(backend: str) -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Read a few events from data in an intermediate format.
"""
)
""")

parser.add_argument(
"backend",
Expand Down
6 changes: 2 additions & 4 deletions examples/02_data/02_plot_feature_distributions.py
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Expand Up @@ -60,11 +60,9 @@ def main() -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Plot feature distributions in dataset.
"""
)
""")

args, unknown = parser.parse_known_args()

Expand Down
6 changes: 2 additions & 4 deletions examples/02_data/03_convert_parquet_to_sqlite.py
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Expand Up @@ -37,11 +37,9 @@ def main(parquet_path: str, tables: List[str]) -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert Parquet files to SQLite database.
"""
)
""")

parser.add_argument(
"--parquet-path",
Expand Down
6 changes: 2 additions & 4 deletions examples/02_data/04_ensemble_dataset.py
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Expand Up @@ -80,10 +80,8 @@ def main() -> None:


if __name__ == "__main__":
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Combine multiple Datasets using EnsembleDataset.
"""
)
""")
args, unknown = parser.parse_known_args()
main()
6 changes: 2 additions & 4 deletions examples/03_weights/01_fit_uniform_weights.py
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Expand Up @@ -31,11 +31,9 @@ def main() -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Fit per-event weights to make the truth-level zenith distribution uniform.
"""
)
""")

args, unknown = parser.parse_known_args()

Expand Down
6 changes: 2 additions & 4 deletions examples/03_weights/02_fit_bjoern_low_weights.py
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Expand Up @@ -39,11 +39,9 @@ def main() -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Fit per-event weights according to the `BjoernLow` weight fitter.
"""
)
""")

args, unknown = parser.parse_known_args()

Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/01_train_dynedge.py
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Expand Up @@ -196,11 +196,9 @@ def main(
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN model without the use of config files.
"""
)
""")

parser.add_argument(
"--path",
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/02_train_tito_model.py
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Expand Up @@ -194,11 +194,9 @@ def main(
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN model without the use of config files.
"""
)
""")

parser.add_argument(
"--path",
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/03_train_dynedge_from_config.py
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Expand Up @@ -118,11 +118,9 @@ def main(

if __name__ == "__main__":
# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN model.
"""
)
""")

parser.with_standard_arguments(
"dataset-config",
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/04_train_multiclassifier_from_configs.py
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Expand Up @@ -144,11 +144,9 @@ def main(

if __name__ == "__main__":
# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN classification model.
"""
)
""")

parser.with_standard_arguments(
(
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/05_train_RNN_TITO.py
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Expand Up @@ -216,11 +216,9 @@ def main(
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN model without the use of config files.
"""
)
""")

parser.add_argument(
"--path",
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/06_train_icemix_model.py
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Expand Up @@ -222,11 +222,9 @@ def main(
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN model without the use of config files.
"""
)
""")

parser.add_argument(
"--path",
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/07_train_normalizing_flow.py
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Expand Up @@ -166,11 +166,9 @@ def main(
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train conditional NormalizingFlow without the use of config files.
"""
)
""")

parser.add_argument(
"--path",
Expand Down
6 changes: 2 additions & 4 deletions examples/04_training/08_train_grit_model.py
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Expand Up @@ -181,11 +181,9 @@ def main(
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Train GNN model without the use of config files.
"""
)
""")

parser.add_argument(
"--path",
Expand Down
6 changes: 2 additions & 4 deletions examples/05_liquido/01_convert_h5.py
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Expand Up @@ -39,11 +39,9 @@ def main(backend: str) -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert h5 files from LiquidO to an intermediate format.
"""
)
""")

parser.add_argument("backend", choices=["sqlite", "parquet"])

Expand Down
6 changes: 2 additions & 4 deletions examples/06_prometheus/01_convert_prometheus.py
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Expand Up @@ -42,11 +42,9 @@ def main(backend: str) -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert parquet files from Prometheus to an intermediate format.
"""
)
""")

parser.add_argument("backend", choices=["sqlite", "parquet"])

Expand Down
6 changes: 2 additions & 4 deletions examples/07_km3net/01_convert_km3net.py
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Expand Up @@ -71,11 +71,9 @@ def main(backend: str, triggered: str, HNL: str, OUTPUT_DIR: str) -> None:
if __name__ == "__main__":

# Parse command-line arguments
parser = ArgumentParser(
description="""
parser = ArgumentParser(description="""
Convert root files from KM3NeT to an sqlite or parquet.
"""
)
""")

parser.add_argument(
"backend",
Expand Down
2 changes: 1 addition & 1 deletion src/graphnet/data/datamodule.py
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Expand Up @@ -575,7 +575,7 @@ def _create_dataset(
# Construct single dataset
dataset = self._create_single_dataset(
selection=selection,
path=self._dataset_args["path"], # type:ignore
path=self._dataset_args["path"], # type: ignore
)
return dataset

Expand Down
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