Support stdin for Bowtie2 (Minimap2 not yet passing test #207
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| name: Test | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-24.04] | |
| python-version: ["3.10", "3.13"] | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| activate-environment: hostile | |
| environment-file: environment.yml | |
| python-version: ${{ matrix.python-version }} | |
| auto-activate-base: false | |
| conda-remove-defaults: true | |
| - run: pip install '.[dev]' | |
| - run: python -m pytest |