conda fix #94
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| name: test | |
| on: | |
| push: | |
| branches: | |
| - develop | |
| pull_request: | |
| branches: | |
| - develop | |
| - main | |
| jobs: | |
| build: | |
| name: Test installation | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| max-parallel: 5 | |
| matrix: | |
| os: [ubuntu-latest, macos-latest] | |
| python-version: [ "3.10" ] | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v2 | |
| - name: Set up conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| channels: conda-forge,bioconda,defaults | |
| miniconda-version: "latest" | |
| auto-activate-base: false | |
| activate-environment: sincei | |
| environment-file: requirements.yml | |
| - name: Check environment | |
| run: | | |
| conda info | |
| - name: List tools | |
| run: | | |
| conda list | |
| - name: Install sincei | |
| run: | | |
| pip install . | |
| which sincei | |
| sincei --help | |
| - name: Generate coverage report | |
| if: matrix.os == 'ubuntu-latest' | |
| run: | | |
| pip install pytest | |
| pip install pytest-cov | |
| pytest --cov=./ | |
| - name: Upload coverage to Codecov | |
| if: matrix.os == 'ubuntu-latest' | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| env_vars: OS,PYTHON | |
| fail_ci_if_error: true | |
| flags: unittests | |
| name: codecov-umbrella | |
| verbose: true | |
| lint: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: psf/black@stable |