Standardized dependency installation for GitHub actions #1472
Workflow file for this run
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| # This workflow will install Python dependencies, run tests and lint with a single version of Python | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: OpenFL-Test | |
| on: | |
| push: | |
| branches: [master] | |
| pull_request: {} | |
| env: | |
| # A workaround for long FQDN names provided by GitHub actions. | |
| FQDN: "localhost" | |
| jobs: | |
| openfl-test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Call reusable workflow to install dependencies | |
| id: dependencies | |
| uses: ./.github/workflows/dependencies | |
| - name: Run generic unit tests to download data and construct CSVs | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml -k "prepare_data_for_ci" | |
| # openfl tests start here | |
| - name: Run OpenFL tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| echo "Removing onnx because of protobuf version conflict" | |
| pip uninstall onnx -y | |
| echo "Installing OpenFL" | |
| git clone --depth=1 https://github.com/securefederatedai/openfl.git | |
| cd openfl | |
| git fetch --tags | |
| # echo "Checkout the latest OpenFL tag" | |
| # latestTag=$(git describe --tags "$(git rev-list --tags --max-count=1)") | |
| # git checkout $latestTag | |
| # sed -i -e 's/protobuf==3.19.6/protobuf/g' setup.py ## this should NOT be there | |
| pip install -e . | |
| cd .. | |
| echo "Copying files to appropriate directories and updated headers" | |
| head -n 1 testing/data/train_2d_rad_segmentation.csv > /home/runner/work/GaNDLF/GaNDLF/openfl/valid.csv | |
| tail -n +9 testing/data/train_2d_rad_segmentation.csv >> /home/runner/work/GaNDLF/GaNDLF/openfl/valid.csv | |
| head -n 8 testing/data/train_2d_rad_segmentation.csv > /home/runner/work/GaNDLF/GaNDLF/openfl/train.csv | |
| sed -i 's/# n_channels: 3/num_channels: 3/g' testing/config_segmentation.yaml | |
| config_to_use=$(pwd)/testing/config_segmentation.yaml | |
| cd openfl | |
| python -m tests.github.test_gandlf --template gandlf_seg_test --fed_workspace aggregator --col1 one --col2 two --rounds-to-train 1 --gandlf_config $config_to_use | |