Merge pull request #12 from RIVM-bioinformatics/release-please--branc… #6
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| # Testing for pipeline python wrapper and scripts used inside rules | |
| name: Juno_assembly test | |
| on: [push, pull_request] | |
| jobs: | |
| build: | |
| runs-on: ${{ matrix.config.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: ubuntu-latest} | |
| name: Testing Apollo-variant-typing ${{ matrix.config.os }} | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Set up mamba env | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: envs/apollo_variant_typing.yaml | |
| - name: Conda list | |
| shell: bash -l {0} | |
| run: conda list | |
| - name: Test AMR mutation parsing | |
| shell: bash -l {0} | |
| run: pytest -v tests/test_amr_mutation_parsing.py |