add function that checks sample names, because we assume that sample … #35
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| name: Test of HBVouroboros with pytest | |
| on: [push] | |
| jobs: | |
| pytest_pipeline: | |
| name: HBVouroboros testing | |
| runs-on: "ubuntu-latest" | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - name: checkout repository | |
| uses: actions/checkout@v2 | |
| - name: initialize conda environment | |
| uses: conda-incubator/setup-miniconda@v2 | |
| - name: create conda environment | |
| run: | | |
| conda install -c conda-forge mamba | |
| mamba env create -f envs/environment.yml | |
| - name: activate environment and run pytest | |
| run: | | |
| mamba init | |
| # reload .bashrc config for current bash terminal | |
| source ~/.bashrc | |
| mamba activate HBVouroboros | |
| pytest -s |