Framework py -> ipynb -> docu #143
Workflow file for this run
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| name: PyTest | ||
| on: | ||
| pull_request: | ||
| paths-ignore: | ||
| - "**.md" | ||
| jobs: | ||
| test: | ||
| runs-on: ubuntu-latest | ||
| permissions: | ||
| pull-requests: write | ||
| contents: write | ||
| strategy: | ||
| matrix: | ||
| python-version: ["3.10", "3.11"] | ||
| steps: | ||
| - name: Checkout repo | ||
| uses: actions/checkout@v3 | ||
| - name: Set up Python ${{ matrix.python-version }} | ||
| uses: actions/setup-python@v4 | ||
| with: | ||
| python-version: ${{ matrix.python-version }} | ||
| cache: 'pip' | ||
| - name: Install dependencies | ||
| run: | | ||
| python -m pip install --upgrade pip | ||
| python -m pip install .[test] | ||
| python -m pip install .[notebook] | ||
| - name: Install pytest-github-actions-annotate-failures plugin | ||
| run: pip install pytest-github-actions-annotate-failures | ||
| - name: Run PyTest | ||
| run: | | ||
| pytest -n 4 --junitxml=pytest.xml --cov-report=term-missing:skip-covered --cov=mrpro | tee pytest-coverage.txt | ||
| - name: Pytest coverage comment | ||
| id: coverageComment | ||
| uses: MishaKav/[email protected] | ||
| with: | ||
| pytest-coverage-path: ./pytest-coverage.txt | ||
| junitxml-path: ./pytest.xml | ||
| - name: Create the Badge | ||
| uses: schneegans/[email protected] | ||
| with: | ||
| auth: ${{ secrets.GIST_SECRET }} | ||
| gistID: 48e334a10caf60e6708d7c712e56d241 | ||
| filename: coverage.json | ||
| label: Coverage Report | ||
| message: ${{ steps.coverageComment.outputs.coverage }} | ||
| color: ${{ steps.coverageComment.outputs.color }} | ||
| namedLogo: python | ||
| - name: Set pipeline status | ||
| run: | | ||
| if [[ ${{ steps.coverageComment.outputs.errors }} -ne 0 || ${{ steps.coverageComment.outputs.failures }} -ne 0 ]]; then | ||
| echo "Errors or failures detected, marking pipeline as failure." | ||
| exit 1 | ||
| fi | ||
| set_notebooks: | ||
| runs-on: ubuntu-latest | ||
| permissions: | ||
| pull-requests: write | ||
| contents: write | ||
| outputs: | ||
| matrix: ${{ steps.set-matrix.outputs.notebooks }} | ||
| steps: | ||
| - name: Checkout repo | ||
| uses: actions/checkout@v3 | ||
| - name: Set up Python 3.11 | ||
| uses: actions/setup-python@v4 | ||
| with: | ||
| python-version: '3.11' | ||
| cache: 'pip' | ||
| - name: Install dependencies | ||
| run: | | ||
| python -m pip install --upgrade pip | ||
| python -m pip install .[notebook] | ||
| - name: Create notebook list | ||
| id: set-matrix | ||
| run: | | ||
| ls ./examples/ | ||
| jupytext --to ipynb $(grep -rl --include='./examples/*.py' './') | ||
| ls | ||
| echo "::set-output name=notebooks:{$(grep -rl --include='*.ipynb' './')}"" | ||
| run_notebooks: | ||
| needs: set_notebooks | ||
| runs-on: ubuntu-latest | ||
| strategy: | ||
| matrix: ${{fromJson(needs.set_notebooks.outputs.notebooks)}} | ||
| steps: | ||
| - name: Get notebook names | ||
| run: | | ||
|
Check failure on line 106 in .github/workflows/pytest.yml
|
||
| echo ${{ notebooks }} | ||
| echo ${{ notebooks.name }} | ||
| - name: Run notebooks | ||
| uses: yaananth/run-notebook@v2 | ||
| env: | ||
| RUNNER: ${{ toJson(runner) }} | ||
| SECRETS: ${{ toJson(secrets) }} | ||
| GITHUB: ${{ toJson(github) }} | ||
| with: | ||
| notebook: "notebook2.ipynb" | ||
