Merge pull request #39 from RIVM-bioinformatics/fix_pulp_version #233
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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 Juno_assembly ${{ matrix.config.os }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: eWaterCycle/setup-singularity@v7 | |
| with: | |
| singularity-version: 3.8.7 | |
| - name: Install Conda environment with Micromamba | |
| uses: mamba-org/provision-with-micromamba@main | |
| with: | |
| cache-downloads: true | |
| environment-file: envs/juno_assembly.yaml | |
| - name: Conda list | |
| shell: bash -l {0} | |
| run: conda list | |
| - name: Test the python wrapper using juno_assembly. | |
| shell: bash -l {0} | |
| run: python ./tests/test_juno_assembly.py |