Merge pull request #21 from snipe-bio/amplicon_restriction #35
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| name: CI | |
| # Trigger the workflow on push and pull request events to the main branch | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| branches: | |
| - main | |
| jobs: | |
| # Job 1: Run Tests | |
| test: | |
| name: Run Tests on Python ${{ matrix.python-version }} | |
| runs-on: ubuntu-latest | |
| # Define a matrix of Python versions to test against | |
| strategy: | |
| matrix: | |
| python-version: [3.11, 3.12, 3.13] | |
| steps: | |
| # Step 1: Checkout the repository | |
| - name: Checkout Repository | |
| uses: actions/checkout@v4 | |
| # Step 2: Set up the specified Python version | |
| - name: Set Up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| # Step 3: Install dependencies using Hatch | |
| - name: Install Dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install hatch | |
| hatch env create | |
| hatch run install | |
| # Step 4: Run the test suite | |
| - name: Run Tests | |
| run: hatch run test | |
| # Job 2: Build and Deploy Documentation | |
| build_and_deploy_docs: | |
| name: Build and Deploy Documentation | |
| runs-on: ubuntu-latest | |
| needs: test # Ensure tests pass before building docs | |
| steps: | |
| # Step 1: Checkout the repository | |
| - name: Checkout Repository | |
| uses: actions/checkout@v4 | |
| # Step 2: Set up Python (using a specific version for consistency) | |
| - name: Set Up Python 3.12 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.12 | |
| # Step 3: Install dependencies for building docs | |
| - name: Install Documentation Dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install hatch | |
| hatch env create docs | |
| hatch run docs-build | |
| # Step 4: Deploy the generated docs to the gh-pages branch | |
| - name: Deploy to GitHub Pages | |
| uses: peaceiris/actions-gh-pages@v3 | |
| with: | |
| github_token: ${{ secrets.GITHUB_TOKEN }} | |
| publish_dir: ./docs/site | |
| publish_branch: gh-pages | |
| release: | |
| if: contains(github.event.head_commit.message, 'make-a-release') | |
| runs-on: ubuntu-latest | |
| name: Release ${{ github.event.head_commit.id }} | |
| needs: test | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.11' | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install hatch twine | |
| - name: Extract Version from __init__.py | |
| id: extract_version | |
| run: | | |
| VERSION=$(python -c "import re; | |
| import pathlib; | |
| init_file = pathlib.Path('src/snipe/__init__.py'); | |
| content = init_file.read_text(); | |
| match = re.search(r'__version__\s*=\s*[\'\"]([^\'\"]+)[\'\"]', content); | |
| print(match.group(1) if match else '0.0.0')") | |
| echo "VERSION=$VERSION" >> $GITHUB_ENV | |
| - name: Build package | |
| run: | | |
| hatch build | |
| - name: Upload to PyPI Test Server | |
| env: | |
| TWINE_USERNAME: __token__ | |
| TWINE_PASSWORD: ${{ secrets.TEST_PYPI_TOKEN }} | |
| run: | | |
| python -m pip install twine | |
| twine upload --repository-url https://test.pypi.org/legacy/ dist/* | |
| - name: Create Git Tag | |
| run: | | |
| git config user.name "GitHub Actions" | |
| git config user.email "[email protected]" | |
| git tag -a "v${{ env.VERSION }}" -m "Release version ${{ env.VERSION }}" | |
| git push origin "v${{ env.VERSION }}" | |
| - name: Create GitHub Release | |
| uses: ncipollo/release-action@v1 | |
| with: | |
| tag: "v${{ env.VERSION }}" | |
| name: "v${{ env.VERSION }}" | |
| body: | | |
| Release version ${{ env.VERSION }} | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |