fixup! Add coverage pipeline #16
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| name: coverage | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - dev | |
| - 144-monitor-test-coverage | |
| workflow_dispatch: | |
| inputs: | |
| notslow: | |
| type: boolean | |
| description: Run without slow tests | |
| default: false | |
| jobs: | |
| coverage-job: | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest] | |
| python-version: ["3.12"] | |
| env: | |
| CONDA_FILE: environment.yml | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Get Date | |
| id: get-date | |
| run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT | |
| shell: bash | |
| - name: Setup Conda Environment | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| miniforge-version: latest | |
| use-mamba: true | |
| activate-environment: cadet-process | |
| channels: conda-forge, | |
| - name: Cache conda | |
| uses: actions/cache@v4 | |
| env: | |
| # Increase this value to reset cache if environment.yml has not changed | |
| CACHE_NUMBER: 0 | |
| with: | |
| path: ${{ env.CONDA }}/envs | |
| key: ${{ matrix.os }}-python_${{ matrix.python-version }}-${{ steps.get-date.outputs.today }}-${{ hashFiles(env.CONDA_FILE) }}-${{ env.CACHE_NUMBER }} | |
| - name: Update environment | |
| run: | | |
| mamba install "setuptools>=69" "pip>=24" | |
| mamba install python=${{ matrix.python-version }} | |
| echo "python=${{ matrix.python-version }}.*" > $CONDA_PREFIX/conda-meta/pinned | |
| mamba env update -n cadet-process -f ${{ env.CONDA_FILE }} | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| - name: Install | |
| run: | | |
| pip install -e ./[testing,coverage] | |
| # Push event doesn't have input context => inputs.notslows is empty => false | |
| - name: Coverage Run | |
| run: | | |
| if [ ${{ github.event.inputs.notslow }} ]; then | |
| pytest -m "not slow" --cov=./CADETProcess --cov=./tests --cov-report term-missing tests | |
| else | |
| pytest --cov=./CADETProcess --cov=./tests --cov-report term-missing tests | |
| fi |