Overcommitted cpus #152
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Planemo | |
| on: [push, pull_request] | |
| env: | |
| GALAXY_BRANCH: release_23.1 | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| # setup micromamba doesn't work as galaxy setup by planemo requires conda. | |
| # installing conda over into micromamba built env screws up the PATH | |
| # setup-miniconda + changing over to libmamba to solve is the easiest workaround | |
| jobs: | |
| planemo_test: | |
| name: Planemo test | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| chunk: [1, 2, 3] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| miniconda-version: "latest" | |
| auto-activate-base: true | |
| - name: setup env | |
| run: | | |
| conda env list | |
| conda install -n base conda-libmamba-solver | |
| conda config --set solver libmamba | |
| conda env create -f .github/test_and_build.yml -n test_and_build | |
| - name: pip install | |
| run: | | |
| conda activate test_and_build | |
| pip install . | |
| - name: planemo | |
| run: | | |
| conda activate test_and_build | |
| ./.planemo.sh ${{ matrix.chunk }} ${{ env.GALAXY_BRANCH }} | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: 'Tool test output ${{ matrix.chunk }}' | |
| path: upload | |
| planemo_combine_outputs: | |
| name: Combine chunked test results | |
| needs: planemo_test | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ['3.7', '3.11'] | |
| steps: | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| path: artifacts | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Cache .cache/pip | |
| uses: actions/cache@v3 | |
| id: cache-pip | |
| with: | |
| path: ~/.cache/pip | |
| key: pip_cache_py_${{ matrix.python-version }}_gxy_${{ env.GALAXY_BRANCH }} | |
| - name: Combine outputs | |
| uses: galaxyproject/planemo-ci-action@v1 | |
| id: combine | |
| with: | |
| mode: combine | |
| html-report: true | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: 'All tool test results' | |
| path: upload | |
| - name: Check outputs | |
| uses: galaxyproject/planemo-ci-action@v1 | |
| id: check | |
| with: | |
| mode: check |