Merge pull request #24 from metagenlab/summary #46
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| name: Tests | |
| on: | |
| push: | |
| branches: ["main","dev"] | |
| paths: | |
| - ".github/workflows/unit-tests.yml" | |
| - "tests/**" | |
| - "assembly_finder/**" | |
| - "setup.py" | |
| - "!.github/workflows/build-docs.yml" | |
| - "!docs/**" | |
| - "!mkdocs.yml" | |
| permissions: | |
| contents: read | |
| jobs: | |
| linux: | |
| runs-on: "ubuntu-latest" | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| strategy: | |
| matrix: | |
| python-version: ["3.12"] | |
| fail-fast: false | |
| name: Linux | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-update-conda: true | |
| miniforge-version: "latest" | |
| miniforge-variant: Mambaforge | |
| use-mamba: true | |
| mamba-version: "*" | |
| channels: conda-forge,bioconda,defaults | |
| channel-priority: strict | |
| activate-environment: assembly_finder | |
| python-version: ${{ matrix.python-version }} | |
| auto-activate-base: false | |
| - name: "Test and generate coverage report for Linux python ${{ matrix.python-version }}" | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install pytest coverage | |
| python -m pip install . | |
| coverage run -m pytest | |
| osx: | |
| runs-on: "macos-latest" | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| strategy: | |
| matrix: | |
| python-version: ["3.12"] | |
| architecture: ["x64"] | |
| fail-fast: false | |
| name: OSX | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-update-conda: true | |
| miniforge-version: "latest" | |
| miniforge-variant: Mambaforge | |
| use-mamba: true | |
| mamba-version: "*" | |
| channels: conda-forge,bioconda,defaults | |
| channel-priority: strict | |
| activate-environment: assembly_finder | |
| python-version: ${{ matrix.python-version }} | |
| auto-activate-base: false | |
| - name: "Test and generate coverage report for OSX python ${{ matrix.python-version }}" | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install pytest coverage | |
| python -m pip install . | |
| coverage run -m pytest |