Add GranDAG algorithm #529
Workflow file for this run
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| name: gh-ci-checks | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.type }} | |
| cancel-in-progress: true | |
| on: | |
| pull_request: | |
| paths: | |
| - "**.py" | |
| - pyproject.toml | |
| - .github/workflows/main.yml | |
| push: | |
| branches: [main] | |
| paths: | |
| - "**.py" | |
| tags: | |
| - "v*.*.*" | |
| workflow_dispatch: | |
| jobs: | |
| style: | |
| timeout-minutes: 10 | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| poetry-version: [1.5.1] | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python 3.9 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.9" | |
| architecture: "x64" | |
| - name: Install Poetry ${{ matrix.poetry-version }} | |
| uses: abatilo/[email protected] | |
| with: | |
| poetry-version: ${{ matrix.poetry-version }} | |
| - name: Install dependencies | |
| run: poetry install --only style | |
| # check formatting of the code style | |
| - name: Check code formatting | |
| run: poetry run poe format_check | |
| # this applies various linting | |
| - name: Lint codebase | |
| run: poetry run poe lint | |
| - name: Type check | |
| run: poetry run poe type_check | |
| build: | |
| timeout-minutes: 15 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu, macos, windows] | |
| python-version: [3.9, "3.10", "3.11"] | |
| poetry-version: [1.5.1] | |
| name: build ${{ matrix.os }} - py${{ matrix.python-version }} | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: "x64" | |
| - name: Install Poetry ${{ matrix.poetry-version }} | |
| uses: abatilo/[email protected] | |
| with: | |
| poetry-version: ${{ matrix.poetry-version }} | |
| - name: Install from source | |
| run: | | |
| poetry install | |
| - name: Test package install | |
| run: poetry run python -c "import dodiscover; print(dodiscover.__version__)" | |
| - name: Remove package install | |
| run: python -m pip uninstall -yq dodiscover | |
| - name: Check poetry lock file | |
| run: poetry update --dry-run | |
| - name: Build package | |
| run: poetry build | |
| - name: Upload package distribution files | |
| if: ${{ matrix.os == 'ubuntu' && matrix.python-version == '3.11' }} | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: package | |
| path: dist | |
| # | |
| # Test wheel-based Installation | |
| # | |
| - name: Install wheel | |
| run: pip install ./dist/*.whl | |
| - name: Test wheel install | |
| run: python -c "import dodiscover; print(dodiscover.__version__)" | |
| - name: Remove wheel install | |
| run: python -m pip uninstall -yq dodiscover | |
| # | |
| # Test sdist-based Installation | |
| # | |
| - name: Install sdist | |
| run: pip install ./dist/*.tar.gz | |
| - name: Test sdist install | |
| run: python -c "import dodiscover; print(dodiscover.__version__)" | |
| - name: Remove sdist install | |
| run: python -m pip uninstall -yq dodiscover | |
| test: | |
| timeout-minutes: 30 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu, macos, windows] | |
| python-version: [3.9, "3.11"] # oldest and newest supported versions | |
| poetry-version: [1.5.1] | |
| networkx: [stable, main] | |
| name: Unit-test ${{ matrix.os }} - py${{ matrix.python-version }} - Networkx ${{ matrix.networkx }} | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: "x64" | |
| - name: Install Poetry ${{ matrix.poetry-version }} | |
| uses: abatilo/[email protected] | |
| with: | |
| poetry-version: ${{ matrix.poetry-version }} | |
| - name: Install packages via poetry | |
| run: | | |
| poetry install --with test --extras graph_func | |
| - name: Install Networkx (main) | |
| if: "matrix.networkx == 'main'" | |
| run: | | |
| pip uninstall -yq networkx | |
| pip install --progress-bar off git+https://github.com/networkx/networkx | |
| - name: Run pytest | |
| run: poetry run poe unit_test | |
| - name: Upload coverage stats to codecov | |
| if: ${{ matrix.os == 'ubuntu' && matrix.python-version == '3.10' && matrix.networkx == 'stable' }} | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| files: ./coverage.xml | |
| fail_ci_if_error: true | |
| verbose: true | |
| integration_test: | |
| timeout-minutes: 30 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu] | |
| python-version: ["3.10"] # oldest and newest supported versions | |
| poetry-version: [1.5.1] | |
| networkx: [main] | |
| name: Integration test ${{ matrix.os }} - py${{ matrix.python-version }} - Networkx ${{ matrix.networkx }} | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: "x64" | |
| - name: Install Poetry ${{ matrix.poetry-version }} | |
| uses: abatilo/[email protected] | |
| with: | |
| poetry-version: ${{ matrix.poetry-version }} | |
| - name: Install packages for Ubuntu | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y graphviz optipng libxft2 graphviz-dev | |
| - name: Setup torch | |
| run: | | |
| sudo apt-get install nvidia-cuda-toolkit nvidia-cuda-toolkit-gcc | |
| - name: Install Poetry Dynamic Versioning Plugin | |
| run: pip install poetry-dynamic-versioning | |
| - name: Install packages via poetry | |
| run: | | |
| poetry install --with test,docs --extras graph_func | |
| - name: Run pytest # headless via Xvfb on linux | |
| run: poetry run poe integration_test | |
| # release is ran when a release is made on Github | |
| release: | |
| name: Release | |
| runs-on: ubuntu-latest | |
| needs: [style, build, test] | |
| if: startsWith(github.ref, 'refs/tags/') | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.9 | |
| architecture: "x64" | |
| - name: Install Poetry ${{ matrix.poetry-version }} | |
| uses: abatilo/[email protected] | |
| with: | |
| poetry-version: ${{ matrix.poetry-version }} | |
| - name: Install Poetry Dynamic Versioning Plugin | |
| run: pip install poetry-dynamic-versioning | |
| - name: Prepare environment | |
| run: | | |
| echo "RELEASE_VERSION=${GITHUB_REF#refs/tags/v}" >> $GITHUB_ENV | |
| echo "TAG=${GITHUB_REF#refs/tags/}" >> $GITHUB_ENV | |
| - name: Build the release artifact | |
| run: | | |
| poetry-dynamic-versioning | |
| poetry build | |
| - name: Download package distribution files | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: package | |
| path: dist | |
| - name: Publish package to PyPI | |
| run: poetry publish --username ${{ secrets.PYPI_USERNAME }} --password ${{ secrets.PYPI_PASSWORD }} | |
| - name: Publish GitHub release | |
| uses: softprops/action-gh-release@v1 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| # body_path: ${{ github.workspace }}-RELEASE_NOTES.md | |
| prerelease: ${{ contains(env.TAG, 'rc') }} | |
| files: | | |
| dist/* |