Feature/prs cs hmcmc #211
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| # This file is autogenerated by maturin v1.5.1 | |
| # To update, run | |
| # | |
| # maturin generate-ci -m python/Cargo.toml github --pytest --zig --platform linux windows macos | |
| # | |
| name: Python Release | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - master | |
| tags: | |
| - "*" | |
| pull_request: | |
| workflow_dispatch: | |
| permissions: | |
| contents: read | |
| jobs: | |
| linux: | |
| runs-on: ${{ matrix.platform.runner }} | |
| strategy: | |
| matrix: | |
| platform: | |
| - runner: ubuntu-latest | |
| target: x86_64 | |
| local_name: x86_64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| - name: Install Golang | |
| uses: actions/setup-go@v4 | |
| with: | |
| go-version: "1.22" | |
| - name: Install Python dependencies | |
| run: pip install -r python/requirements-dev.txt | |
| - name: Build wheels | |
| uses: PyO3/maturin-action@v1 | |
| with: | |
| target: ${{ matrix.platform.target }} | |
| args: --release --out dist --find-interpreter --manifest-path python/Cargo.toml --zig | |
| sccache: "false" | |
| manylinux: auto | |
| - name: Upload wheels | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: wheels-linux-${{ matrix.platform.target }} | |
| path: dist | |
| - name: pytest | |
| shell: bash | |
| run: | | |
| set -e | |
| python --version | |
| ls -la dist | |
| go install github.com/bystrogenomics/bystro-vcf@2.2.2 | |
| PYTHON_VERSION=$(python -c "import sys; print(f'cp{sys.version_info.major}{sys.version_info.minor}')") | |
| ARCHITECTURE=${{ matrix.platform.local_name }} | |
| echo "PYTHON_VERSION: $PYTHON_VERSION" | |
| echo "ARCHITECTURE: $ARCHITECTURE" | |
| WHEEL_FILE=$(find dist -name "*${PYTHON_VERSION}*${ARCHITECTURE}*.whl" | head -n 1) | |
| echo "WHEEL_FILE: $WHEEL_FILE" | |
| pip install $WHEEL_FILE --verbose --force-reinstall | |
| bystro-api --help | |
| pip install pytest | |
| ray start --head | |
| cd python && pytest | |
| windows: | |
| runs-on: ${{ matrix.platform.runner }} | |
| strategy: | |
| matrix: | |
| platform: | |
| - runner: windows-latest | |
| target: x64 | |
| local_name: amd64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| architecture: ${{ matrix.platform.target }} | |
| - name: Install Python dependencies | |
| run: pip install -r python/requirements-dev.txt | |
| - name: Build wheels | |
| uses: PyO3/maturin-action@v1 | |
| with: | |
| target: ${{ matrix.platform.target }} | |
| args: --release --out dist --find-interpreter --manifest-path python/Cargo.toml | |
| sccache: "false" | |
| - name: Upload wheels | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: wheels-windows-${{ matrix.platform.target }} | |
| path: dist | |
| - name: Install and wheel and check bystro-api command exists | |
| shell: bash | |
| run: | | |
| set -e | |
| python --version | |
| ls -la dist | |
| PYTHON_VERSION=$(python -c "import sys; print(f'cp{sys.version_info.major}{sys.version_info.minor}')") | |
| ARCHITECTURE=${{ matrix.platform.local_name }} | |
| echo "PYTHON_VERSION: $PYTHON_VERSION" | |
| echo "ARCHITECTURE: $ARCHITECTURE" | |
| WHEEL_FILE=$(find dist -name "*${PYTHON_VERSION}*${ARCHITECTURE}*.whl" | head -n 1) | |
| echo "WHEEL_FILE: $WHEEL_FILE" | |
| pip install $WHEEL_FILE --verbose --force-reinstall | |
| bystro-api --help | |
| macos: | |
| runs-on: ${{ matrix.platform.runner }} | |
| strategy: | |
| matrix: | |
| platform: | |
| - runner: macos-12 | |
| target: x86_64 | |
| local_name: x86_64 | |
| - runner: macos-14 | |
| target: aarch64 | |
| local_name: arm64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| - name: Install Golang | |
| uses: actions/setup-go@v4 | |
| with: | |
| go-version: "1.22" | |
| - name: Install Python dependencies | |
| run: pip install -r python/requirements-dev.txt | |
| - name: Build wheels | |
| uses: PyO3/maturin-action@v1 | |
| with: | |
| target: ${{ matrix.platform.target }} | |
| args: --release --out dist --find-interpreter --manifest-path python/Cargo.toml | |
| sccache: "false" | |
| - name: Upload wheels | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: wheels-macos-${{ matrix.platform.target }} | |
| path: dist | |
| - name: pytest | |
| shell: bash | |
| run: | | |
| set -e | |
| python --version | |
| ls -la dist | |
| go install github.com/bystrogenomics/bystro-vcf@2.2.2 | |
| PYTHON_VERSION=$(python -c "import sys; print(f'cp{sys.version_info.major}{sys.version_info.minor}')") | |
| ARCHITECTURE=${{ matrix.platform.local_name }} | |
| echo "PYTHON_VERSION: $PYTHON_VERSION" | |
| echo "ARCHITECTURE: $ARCHITECTURE" | |
| WHEEL_FILE=$(find dist -name "*${PYTHON_VERSION}*${ARCHITECTURE}*.whl" | head -n 1) | |
| echo "WHEEL_FILE: $WHEEL_FILE" | |
| pip install $WHEEL_FILE --verbose --force-reinstall | |
| bystro-api --help | |
| pip install pytest | |
| ray start --head | |
| cd python && pytest | |
| sdist: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Build sdist | |
| uses: PyO3/maturin-action@v1 | |
| with: | |
| command: sdist | |
| args: --out dist --manifest-path python/Cargo.toml | |
| - name: Upload sdist | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: wheels-sdist | |
| path: dist | |
| release: | |
| name: Release | |
| runs-on: ubuntu-latest | |
| if: "startsWith(github.ref, 'refs/tags/')" | |
| needs: [linux, windows, macos, sdist] | |
| steps: | |
| - uses: actions/download-artifact@v4 | |
| - name: Publish to PyPI | |
| uses: PyO3/maturin-action@v1 | |
| env: | |
| MATURIN_PYPI_TOKEN: ${{ secrets.PYPI_API_TOKEN }} | |
| with: | |
| command: upload | |
| args: --non-interactive --skip-existing wheels-*/* |