Repro spurious DoesNotExistError #62
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: Test cellxgene_census_builder/tests/test_builder.py | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| runs-on: | |
| description: 'Select a runner ("macos-latest" = Intel, "macos-latest-xlarge" = M1)' | |
| default: ubuntu-latest | |
| type: choice | |
| options: | |
| - macos-latest | |
| - macos-latest-xlarge | |
| - ubuntu-latest | |
| # - windows-latest | |
| ref: | |
| description: 'TileDB-SOMA branch or tag clone/install/test (leave blank to install latest version from PyPI)' | |
| default: 'main' | |
| checkout: | |
| description: 'Checkout TileDB-SOMA at this commit or ref' | |
| jobs: | |
| build: | |
| name: Test ${{ inputs.checkout || inputs.ref || 'main' }} | |
| runs-on: ${{ inputs.runs-on || 'ubuntu-latest' }} | |
| steps: | |
| - name: 'Debug: `github` context' | |
| run: echo "${{ toJSON(github.event) }}" | |
| - name: Clone census | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: chanzuckerberg/cellxgene-census | |
| ref: main | |
| path: census | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.11.8 | |
| - name: Install cellxgene_census_builder | |
| run: | | |
| pip install -e census/tools/cellxgene_census_builder | |
| pip list | |
| python -c 'import cellxgene_census_builder' | |
| - name: Clone TileDB-SOMA@${{ inputs.ref || 'main' }} | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: single-cell-data/TileDB-SOMA | |
| ref: ${{ inputs.ref || 'main' }} | |
| fetch-depth: ${{ inputs.checkout == '' && 1 || 0 }} | |
| path: tiledbsoma | |
| - name: Checkout ${{ inputs.checkout }} | |
| if: inputs.checkout != '' | |
| working-directory: tiledbsoma | |
| run: | | |
| git checkout ${{ inputs.checkout }} | |
| git log -1 | |
| - name: Install TileDB-SOMA | |
| run: pip install -e tiledbsoma/apis/python pytest | |
| - name: Show package versions | |
| run: | | |
| uname -a | |
| pip list | |
| python -c 'import tiledbsoma; tiledbsoma.show_package_versions()' | |
| python tiledbsoma/scripts/show-versions.py | |
| - name: Run census test | |
| working-directory: census/tools/cellxgene_census_builder | |
| run: pytest tests/test_builder.py |