GH Actions Cron CI #212
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: GH Actions Cron CI | |
| on: | |
| push: | |
| branches: | |
| - main | |
| schedule: | |
| # once a week at midnight on Sunday | |
| - cron: "0 3 * * 0" | |
| workflow_dispatch: | |
| concurrency: | |
| # Commits to develop/master will cancel each other, but PRs will only cancel | |
| # commits within the same PR | |
| group: "${{ github.ref }}-${{ github.head_ref }}-${{ github.workflow }}" | |
| cancel-in-progress: true | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| jobs: | |
| gen_matrix: | |
| runs-on: ubuntu-22.04 | |
| outputs: | |
| matrix: ${{ steps.get-mdakits.outputs.matrix }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - id: get-python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.12" | |
| - id: get-mdakits | |
| run: | | |
| mdakit=$(python utils/get_dir_matrix.py) | |
| echo "matrix=${mdakit}" >> $GITHUB_OUTPUT | |
| env_config: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| python-stable: ${{ steps.get-compatible-python.outputs.stable-python }} | |
| python-min: ${{ steps.get-compatible-python.outputs.oldest-python }} | |
| steps: | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.12" | |
| - id: get-compatible-python | |
| uses: MDAnalysis/mdanalysis-compatible-python@main | |
| with: | |
| release: "develop" | |
| mdakit-ci: | |
| needs: [gen_matrix, env_config] | |
| runs-on: ubuntu-22.04 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| mdakit: ${{fromJSON(needs.gen_matrix.outputs.matrix)}} | |
| jobstep: ['latest', 'develop'] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - id: get-base-python-deps | |
| name: get-base-python-deps | |
| run: | | |
| pip install requests setuptools packaging pyyaml pydantic PyGithub | |
| - id: check-set-python-bounds | |
| name: check-set-python-bounds | |
| continue-on-error: false | |
| run: | | |
| maxpy=${{needs.env_config.outputs.python-stable}} | |
| minpy=${{needs.env_config.outputs.python-min}} | |
| pyver=$(python utils/check_python_ver.py --mdakit "${{matrix.mdakit}}" --maxpyver ${maxpy} --minpyver ${minpy}) | |
| echo "PYVER=${pyver}" >> $GITHUB_ENV | |
| - id: install-conda-env | |
| name: install-conda-env | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| python-version: ${{ env.PYVER }} | |
| add-pip-as-python-dependency: true | |
| architecture: x64 | |
| use-mamba: true | |
| miniforge-version: latest | |
| channels: conda-forge, defaults | |
| channel-priority: flexible | |
| auto-update-conda: true | |
| show-channel-urls: true | |
| - id: install-conda-base-deps | |
| name: install-conda-base-deps | |
| run: | | |
| mamba install requests setuptools packaging pyyaml pydantic | |
| pip install PyGithub | |
| - id: install-mdakit | |
| name: install-mdakit | |
| continue-on-error: true | |
| run: | | |
| if [[ ${{ matrix.jobstep }} == "develop" ]]; then | |
| type="src" | |
| else | |
| type="install" | |
| fi | |
| install=$(python utils/get_install.py --itype ${type} --mdakit ${{matrix.mdakit}}) | |
| echo "install=${install}" | |
| eval ${install} | |
| - id: install-test-deps | |
| name: install-test-deps | |
| continue-on-error: true | |
| run: | | |
| install=$(python utils/get_testdeps.py --mdakit ${{matrix.mdakit}}) | |
| echo "install tests:${install}" | |
| eval ${install} | |
| - id: install-mdanalysis | |
| name: install-mdanalysis | |
| uses: MDAnalysis/install-mdanalysis@main | |
| continue-on-error: true | |
| with: | |
| version: ${{ matrix.jobstep }} | |
| install-tests: true | |
| installer: mamba | |
| shell: bash -l {0} | |
| - id: run-tests | |
| name: run-tests | |
| continue-on-error: true | |
| run: | | |
| tests=$(python utils/get_runtests.py --mdakit ${{matrix.mdakit}} --runtype ${{matrix.jobstep}}) | |
| echo "tests: ${tests}" | |
| eval ${tests} | |
| - id: store-errors | |
| name: store-errors | |
| run: | | |
| echo "install_python=${{ steps.check-set-python-bounds.outcome }}" >> $GITHUB_ENV | |
| echo "install_mdakit=${{ steps.install-mdakit.outcome }}" >> $GITHUB_ENV | |
| echo "install_test_deps=${{ steps.install-test-deps.outcome }}" >> $GITHUB_ENV | |
| echo "install_mdanalysis=${{ steps.install-mdanalysis.outcome }}" >> $GITHUB_ENV | |
| echo "run_tests=${{ steps.run-tests.outcome }}" >> $GITHUB_ENV | |
| - id: write-errors | |
| name: write-errors | |
| run: | | |
| python utils/write-ci-status-json.py --tag ${{ matrix.jobstep }} --mdakit ${{ matrix.mdakit }} | |
| - id: upload-artifacts | |
| name: upload-artifacts | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: cron-statuses-${{ matrix.mdakit }}-${{ matrix.jobstep }} | |
| path: ${{ matrix.mdakit }}-${{ matrix.jobstep }}-statuses.json | |
| retention-days: 1 | |
| if-no-files-found: error | |
| process_results: | |
| if: ${{ always() }} | |
| needs: mdakit-ci | |
| runs-on: ubuntu-22.04 | |
| permissions: | |
| contents: write | |
| pull-requests: write | |
| packages: none | |
| issues: write | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/download-artifact@v4 | |
| with: | |
| path: json-statuses/ | |
| - name: list-temp-files | |
| run: ls -l json-statuses/*/ | |
| - id: get-base-python-deps | |
| name: get-base-python-deps | |
| run: | | |
| pip install requests setuptools packaging pyyaml pydantic PyGithub | |
| - id: combine-write-raise-issues | |
| name: combine-write-raise-issues | |
| run: | | |
| python utils/handle-status.py | |
| env: | |
| GITHUB_TOKEN: ${{ github.token }} | |
| - uses: stefanzweifel/git-auto-commit-action@v4 | |
| with: | |
| commit_message: commit changes to status files | |
| skip_dirty_check: false | |
| skip_fetch: false | |
| deploy_docs: | |
| if: ${{ always() }} | |
| needs: process_results | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: setup_micromamba | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: docs/requirements.yaml | |
| environment-name: MDAKitRegistry-docs | |
| create-args: >- | |
| python=3.9 | |
| pip | |
| - name: build_docs | |
| run: | | |
| cd docs && sphinx-build -b html source build | |
| - name: deploy docs | |
| uses: peaceiris/actions-gh-pages@v3 | |
| with: | |
| github_token: ${{ secrets.GITHUB_TOKEN }} | |
| publish_dir: ./docs/build | |
| cname: mdakits.mdanalysis.org | |
| user_name: 'github-actions' | |
| user_email: 'github-action@users.noreply.github.com' |