add check for hdf5 where formats can be both topology and traj (#344) #30
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| name: test | |
| on: | |
| push: | |
| branches: | |
| - "westpa2" | |
| - "develop" | |
| pull_request: | |
| branches: | |
| - "westpa2" | |
| - "develop" | |
| schedule: | |
| # Weekly tests run on "westpa2" and "develop" on Thursdays 3:30 PM UTC (which is 10:30/11:30 EST/EDT) | |
| # Scheduled workflows run on the latest commit on the default or base branch. | |
| # (from https://help.github.com/en/actions/reference/events-that-trigger-workflows#scheduled-events-schedule) | |
| - cron: "30 15 * * 4" | |
| jobs: | |
| lint: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.9 | |
| - name: Linting | |
| run: | | |
| pip install pre-commit | |
| pre-commit run --all-files | |
| test: | |
| name: Test on ${{ matrix.os }}, Python ${{ matrix.python-version }} | |
| runs-on: "${{ matrix.os }}" | |
| strategy: | |
| matrix: | |
| os: ["ubuntu-latest", "macos-latest"] | |
| python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 2 | |
| - name: Additional info about the build | |
| shell: bash | |
| run: | | |
| uname -a | |
| df -h | |
| ulimit -a | |
| # More info on options: https://github.com/conda-incubator/setup-miniconda | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| miniforge-variant: Mambaforge | |
| environment-file: devtools/conda-envs/test_env.yaml | |
| activate-environment: test_env | |
| channel-priority: true | |
| auto-update-conda: true | |
| auto-activate-base: false | |
| show-channel-urls: true | |
| - name: Install package | |
| # conda setup requires this special shell | |
| shell: bash -l {0} | |
| run: | | |
| conda info --all | |
| python -m pip install . -v --no-deps | |
| conda list | |
| - name: Run tests | |
| # conda setup requires this special shell | |
| shell: bash -l {0} | |
| run: | | |
| pytest -v --cov=westpa --cov-report=xml --color=yes tests | |
| - name: CodeCov | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| file: ./coverage.xml | |
| flags: unittests | |
| name: codecov-{{ '${{ matrix.os }}' }}-py{{ '${{ matrix.python-version }}' }} | |
| fail_ci_if_error: false | |
| install-dev: | |
| strategy: | |
| matrix: | |
| os: ["ubuntu-latest", "macos-latest"] | |
| name: "Verify dev env" | |
| runs-on: "${{ matrix.os }}" | |
| steps: | |
| - uses: "actions/checkout@v3" | |
| - uses: "actions/setup-python@v4" | |
| with: | |
| python-version: "3.11" | |
| - name: "Install in dev mode" | |
| run: "python -m pip install -e .[dev]" | |
| - name: "Import package" | |
| run: "python -c 'import westpa; print(westpa.__version__)'" |