Fix GitHub Actions #111
Workflow file for this run
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| name: Tests | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| env: | |
| FORCE_COLOR: 3 | |
| CONDA_ENV: ./environment.yml | |
| jobs: | |
| lint: | |
| name: Run Linters | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Run black | |
| uses: psf/black@stable | |
| - name: Run flake8 | |
| uses: py-actions/flake8@v2 | |
| with: | |
| path: "tjpcov tests" | |
| tests: | |
| needs: lint | |
| name: Check Python ${{ matrix.python-version }} on ${{ matrix.runs-on }} | |
| runs-on: ${{ matrix.runs-on }} | |
| defaults: | |
| run: | |
| # IMPORTANT: this is needed to make sure that the conda environment is auto activated | |
| shell: bash -el {0} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.8", "3.11"] | |
| runs-on: [ubuntu-latest, macos-latest] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Set up mamba | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| channels: conda-forge | |
| python-version: ${{ matrix.python-version }} | |
| show-channel-urls: true | |
| auto-update-conda: true | |
| use-mamba: true | |
| activate-environment: tjpcov | |
| miniforge-version: latest | |
| miniforge-variant: Mambaforge | |
| - name: Cache Date | |
| id: get-date | |
| run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT | |
| - name: Check for cached environment | |
| uses: actions/cache@v3 | |
| id: cache | |
| env: | |
| # Increase this value to reset cache if etc/example-environment.yml has not changed | |
| CACHE_NUMBER: 0 | |
| with: | |
| path: ${{env.CONDA}}/envs | |
| key: | |
| ${{runner.os}}.${{runner.arch}}.mamba-py.${{matrix.python-version}}.${{hashFiles('pyproject.toml')}}.${{hashFiles('environment.yml')}}.${{steps.get-date.outputs.today}}.${{env.CACHE_NUMBER}} | |
| - name: Install environment packages | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| run: | | |
| export MAMBA_NO_BANNER=1 | |
| mamba env update --file ${{ env.CONDA_ENV }} | |
| - name: Install TJPCov | |
| run: | | |
| pip install .[nmt] --no-deps | |
| - name: Install mpi4py into cache | |
| # If this is cached, re-add mpi4py | |
| if: steps.cache.outputs.cache-hit == 'true' | |
| run: | | |
| mamba install -y openmpi | |
| pip install -U mpi4py --no-cache-dir --no-deps | |
| - name: Run Tests | |
| run: coverage run --source=tjpcov -m pytest -vv tests/ | |
| - name: Run MPI Tests (OpenMPI) | |
| run: | | |
| mpiexec -n 2 pytest -vv tests/test_mpi.py | |
| mamba remove -y openmpi | |
| pip uninstall -y mpi4py | |
| - name: Run MPI Tests (mpich) | |
| run: | | |
| mamba install -y mpich | |
| pip install -U mpi4py --no-cache-dir --no-deps | |
| mpiexec -n 2 pytest -vv tests/test_mpi.py | |
| mamba remove -y mpich | |
| pip uninstall -y mpi4py | |
| - name: Collect coverage report | |
| uses: coverallsapp/github-action@v2 | |
| with: | |
| github-token: ${{ secrets.GITHUB_TOKEN }} | |
| flag-name: run-${{ join(matrix.*, '-') }} | |
| parallel: true | |
| finish: | |
| needs: tests | |
| name: Collect all coverage reports and publish to coveralls.io | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Collect all coverage reports and publish to coveralls.io | |
| uses: coverallsapp/github-action@master | |
| with: | |
| carryforward: "run-3.8-ubuntu-latest,run-3.11-ubuntu-latest,run-3.8-macos-latest,run-3.11-macos-latest" | |
| github-token: ${{ secrets.GITHUB_TOKEN }} | |
| parallel-finished: true |