RTD Build Fix #543
Workflow file for this run
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| name: Cookiecutter CI | |
| on: | |
| push: | |
| branches: | |
| - "main" | |
| pull_request: | |
| branches: | |
| - "main" | |
| schedule: | |
| # weekly tests | |
| - cron: "0 0 * * 0" | |
| defaults: | |
| run: | |
| shell: bash | |
| env: | |
| ARTIFACT_NAME: demo-mdakit-repos | |
| OUTPUT_DIRECTORY: /home/runner/example_outputs | |
| OUTPUT_COOKIE_SUBDIRECTORY: TestMDAKit_with_host_MDAnalysis_condaforge-deps_and_ReadTheDocs/mdakit-Cookie | |
| GH_USER: github-actions | |
| GH_EMAIL: "[email protected]" | |
| GH_REPOSITORY: "github.com/${{ github.repository }}.git" | |
| jobs: | |
| cookiecutter-main-tests: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macOS-latest, windows-latest] | |
| # check last three versions of Python | |
| last-n-minor-python-release: [2, 1, 0] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - id: get-python-version | |
| uses: MDAnalysis/get-latest-python-version@main | |
| with: | |
| last-n-minor-release: ${{ matrix.last-n-minor-python-release }} | |
| - name: Environment information | |
| run: | | |
| uname -a | |
| df -h | |
| ulimit -a | |
| echo "Using Python ${{ steps.get-python-version.outputs.python-version }}" | |
| - name: Set up Python ${{ steps.get-python-version.outputs.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ steps.get-python-version.outputs.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install -U pytest pyyaml cookiecutter | |
| - name: Run cookiecutter tests | |
| run: | | |
| # --keep-test-outputs also saves the generated repositories | |
| if [[ ${{ matrix.os }} == "ubuntu-latest" ]] ; then | |
| PYTEST_FLAGS="--keep-test-outputs ${{ env.OUTPUT_DIRECTORY }}" | |
| else | |
| PYTEST_FLAGS="" | |
| fi | |
| echo "PYTEST_FLAGS=${PYTEST_FLAGS}" | |
| pytest tests/ $PYTEST_FLAGS | |
| - name: check cookie CI presence | |
| if: ${{ matrix.os == 'ubuntu-latest' }} | |
| run: | | |
| ls -la ${{ env.OUTPUT_DIRECTORY }}/ | |
| ls -la ${{ env.OUTPUT_DIRECTORY }}/${{ env.OUTPUT_COOKIE_SUBDIRECTORY }}/ | |
| - name: Run cookie CI | |
| if: ${{ matrix.os == 'ubuntu-latest' }} | |
| uses: ./.github/actions/run-cookie-ci | |
| with: | |
| source-directory: ${{ env.OUTPUT_DIRECTORY }}/${{ env.OUTPUT_COOKIE_SUBDIRECTORY }} | |
| CODECOV_TOKEN: ${{ secrets.COOKIE_CODECOV_TOKEN }} | |
| - name: Upload artifact | |
| if: ${{ matrix.os == 'ubuntu-latest' && matrix.last-n-minor-python-release == 0 }} | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: ${{ env.ARTIFACT_NAME }} | |
| path: ${{ env.OUTPUT_DIRECTORY }} | |
| retention-days: 3 | |
| update-repo-examples: | |
| if: github.event_name != 'pull_request' | |
| needs: cookiecutter-main-tests | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Make output directory | |
| run: mkdir $OUTPUT_DIRECTORY | |
| - name: Download artifact | |
| uses: actions/download-artifact@v4 | |
| with: | |
| name: ${{ env.ARTIFACT_NAME }} | |
| path: ${{ env.OUTPUT_DIRECTORY }} | |
| - name: Push to cookie repo | |
| uses: ./.github/actions/push-to-cookie | |
| with: | |
| source-directory: ${{ env.OUTPUT_DIRECTORY }} | |
| target-repository: mdakit-cookie | |
| source-package: mdakit-Cookie | |
| target-ssh-deploy-key: ${{ secrets.MDAKIT_COOKIE_SSH_DEPLOY_KEY }} | |
| - name: Push to remote | |
| env: | |
| GH_USER: github-actions | |
| GH_EMAIL: "[email protected]" | |
| GH_REPOSITORY: "github.com/${{ github.repository }}.git" | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| # dynamic vars | |
| BRANCH="${GITHUB_REF#refs/heads/}" | |
| REV=$(git rev-parse --short HEAD) | |
| cd $HOME | |
| mkdir examples | |
| cd examples | |
| # set up git | |
| git init | |
| git config user.name $GH_USER | |
| git config user.email $GH_EMAIL | |
| git remote add upstream "https://${GH_USER}:${GH_TOKEN}@${GH_REPOSITORY}" | |
| git fetch --depth 50 upstream $BRANCH examples | |
| git reset upstream/examples | |
| # update examples | |
| for keep in README.md ; do | |
| if [[ -e $keep ]] ; then | |
| cp $keep ${{ env.OUTPUT_DIRECTORY }}/ | |
| fi | |
| done | |
| rm -rf * | |
| mv ${{ env.OUTPUT_DIRECTORY }}/* . | |
| # push back to GitHub | |
| git add . | |
| git diff-index --quiet HEAD -- || git commit -m "rebuilt examples from branch ${BRANCH} with CI at ${REV}" | |
| git push -q upstream HEAD:examples | |
| build_docs: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install conda dependencies | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| environment-file: docs/requirements.yaml | |
| add-pip-as-python-dependency: true | |
| architecture: x64 | |
| miniforge-variant: Mambaforge | |
| use-mamba: true | |
| channels: conda-forge, defaults | |
| activate-environment: cookiecutter-mdakit-docs | |
| auto-update-conda: true | |
| show-channel-urls: true | |
| - name: Build docs | |
| shell: bash -l {0} | |
| working-directory: docs | |
| run: make html | |
| - name: Deploy docs | |
| if: github.event_name != 'pull_request' | |
| working-directory: docs/_build/html | |
| run: | | |
| BRANCH="${GITHUB_REF#refs/heads/}" | |
| REV=$(git rev-parse --short HEAD) | |
| git init | |
| git config user.name $GH_USER | |
| git config user.email $GH_EMAIL | |
| git remote add upstream "https://${GH_USER}:${{ secrets.GITHUB_TOKEN }}@${GH_REPOSITORY}" | |
| git fetch --depth 50 upstream $BRANCH gh-pages | |
| git reset upstream/gh-pages | |
| touch . | |
| touch .nojekyll | |
| git add . | |
| git diff-index --quiet HEAD -- || git commit -m "rebuilt html docs from branch ${BRANCH} with sphinx at ${REV}" | |
| git push -q upstream HEAD:gh-pages |