New python tests #15
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| name: Python workflow Tests | |
| on: | |
| push: | |
| paths: | |
| - biobb_wf_ligand_parameterization/python/workflow.env.yml | |
| workflow_dispatch: | |
| jobs: | |
| detect-files: | |
| name: Detect Changed Files | |
| runs-on: self-hosted | |
| outputs: | |
| changed_files: ${{ steps.detect_changes.outputs.changed_files }} | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Detect changed files | |
| id: detect_changes | |
| run: | | |
| git diff --name-only ${{ github.event.before }} ${{ github.sha }} > changed_files.txt | |
| changed_files=$(cat changed_files.txt) | |
| echo "changed_files=$changed_files" >> $GITHUB_ENV | |
| shell: bash | |
| run-jobs: | |
| needs: detect-files | |
| runs-on: self-hosted | |
| strategy: | |
| matrix: | |
| include: | |
| - file: 'biobb_wf_ligand_parameterization/python/workflow.env.yml' | |
| job: 'biobb_wf_ligand_parameterization' | |
| wf_name: 'biobb_wf_ligand_parameterization' | |
| # - file: 'path/to/another/file.yml' | |
| # job: 'another_job' | |
| # wf_name: 'another_workflow' | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| - name: Run conditional job | |
| if: contains(needs.detect-files.outputs.changed_files, 'biobb_wf_ligand_parameterization/python/workflow.env.yml') | |
| uses: ./.github/workflows/common-python.yaml | |
| with: | |
| wf_name: ${{ matrix.wf_name }} | |
| # - name: Check out repository code | |
| # if: contains(needs.detect-files.outputs.changed_files, 'biobb_wf_ligand_parameterization/python/workflow.env.yml') | |
| # uses: actions/checkout@v4 | |
| # - run: echo "Repository -> ${{ github.repository }}" | |
| # - run: echo "Branch -> ${{ github.ref }}" | |
| # - run: echo "Trigger event -> ${{ github.event_name }}" | |
| # - run: echo "Runner OS -> ${{ runner.os }}" | |
| # - name: List files in the repository | |
| # run: | | |
| # ls ${{ github.workspace }} | |
| # - name: Remove all micromamba installations | |
| # if: contains(needs.detect-files.outputs.changed_files, 'biobb_wf_ligand_parameterization/python/workflow.env.yml') | |
| # run: | | |
| # rm -rf $HOME/.bash_profile $HOME/.conda $HOME/micromamba $HOME/micromamba-bin 2>/dev/null | |
| # touch $HOME/.bash_profile | |
| # - name: setup-micromamba | |
| # if: contains(needs.detect-files.outputs.changed_files, 'biobb_wf_ligand_parameterization/python/workflow.env.yml') | |
| # uses: mamba-org/[email protected] | |
| # with: | |
| # generate-run-shell: true | |
| # micromamba-version: '2.0.2-2' | |
| # post-cleanup: 'all' | |
| # init-shell: bash | |
| # environment-file: biobb_wf_ligand_parameterization/python/workflow.env.yml | |
| # create-args: >- | |
| # pytest | |
| # - name: List installed package versions | |
| # shell: bash -l {0} | |
| # run: micromamba list | |
| # - name: Run tests | |
| # if: contains(needs.detect-files.outputs.changed_files, 'biobb_wf_ligand_parameterization/python/workflow.env.yml') | |
| # shell: bash -l {0} | |
| # run: | | |
| # export PYTHONPATH=.:./biobb_common:$PYTHONPATH | |
| # cd biobb_wf_ligand_parameterization/tests/python | |
| # # Production one | |
| # pytest biobb_wf_ligand_parameterization.py --config ../../python/workflow.yml --remove | |