style: formatting #12
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| # Testing for pipeline python wrapper and scripts used inside rules | |
| name: Clustering script tests | |
| on: [push, pull_request] | |
| jobs: | |
| build: | |
| runs-on: ${{ matrix.config.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: ubuntu-latest} | |
| name: Testing on ${{ matrix.config.os }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install Conda environment with Micromamba | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| generate-run-shell: false # see https://github.com/mamba-org/setup-micromamba/issues/130 | |
| cache-downloads: true | |
| environment-file: tests/env.yaml | |
| - name: Conda list | |
| shell: bash -l {0} | |
| run: conda list | |
| - name: Unit tests | |
| shell: bash -l {0} | |
| run: pytest . | |
| - name: Integration test, normal flow | |
| shell: bash -l {0} | |
| run: bash tests/normal_flow/run_test.sh | |
| - name: Integration test, no previous clustering | |
| shell: bash -l {0} | |
| run: bash tests/no_previous_clustering/run_test.sh | |
| - name: Integration test, merged clusters | |
| shell: bash -l {0} | |
| run: bash tests/merge/run_test.sh | |
| - name: Integration test, curation | |
| shell: bash -l {0} | |
| run: bash tests/curation/run_test.sh |