(fix): python debugger dask h5 meta array #3325
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: AWS GPU | |
| on: | |
| push: | |
| branches: [main, "[0-9]+.[0-9]+.x"] | |
| pull_request: | |
| types: | |
| - labeled | |
| - opened | |
| - synchronize | |
| # Cancel the job if new commits are pushed | |
| # https://stackoverflow.com/questions/66335225/how-to-cancel-previous-runs-in-the-pr-when-you-push-new-commitsupdate-the-curre | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }} | |
| cancel-in-progress: true | |
| # There are two jobs: | |
| # 1. `check` determines if the second job (`test`) will be run (through a job dependency). | |
| # 2. `test` runs on an AWS runner and executes the GPU tests. | |
| jobs: | |
| # If the `skip-gpu-ci` label is set, this job is skipped, and consequently the `test` job too. | |
| # If the `run-gpu-ci` label is set or we reacted to a `push` event, this job succeeds (and `test` is run). | |
| # If neither is set, this job fails, `test` is skipped, and the whole workflow fails. | |
| check: | |
| name: "Triage: Check if GPU tests are allowed to run" | |
| if: (!contains(github.event.pull_request.labels.*.name, 'skip-gpu-ci')) | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: flying-sheep/check@v1 | |
| with: | |
| success: ${{ github.event_name == 'push' || contains(github.event.pull_request.labels.*.name, 'run-gpu-ci') }} | |
| # If `check` wasn’t skipped or failed, start an AWS runner and run the GPU tests on it. | |
| test: | |
| name: GPU Tests | |
| needs: check | |
| runs-on: "cirun-aws-gpu--${{ github.run_id }}" | |
| # Setting a timeout of 30 minutes, as the AWS costs money | |
| # At time of writing, a typical run takes about 5 minutes | |
| timeout-minutes: 30 | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Nvidia SMI sanity check | |
| run: nvidia-smi | |
| - name: Install yq | |
| run: | | |
| sudo snap install yq | |
| - name: Extract max Python version from classifiers | |
| run: | | |
| classifiers=$(yq .project.classifiers pyproject.toml -oy | grep --only-matching --perl-regexp '(?<=Python :: )(\d\.\d+)') | |
| max_version=$(echo "$classifiers" | sort -V | tail -1) | |
| echo "max_python_version=$max_version" >> $GITHUB_ENV | |
| - name: Install Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ env.max_python_version }} | |
| - name: Install UV | |
| uses: hynek/setup-cached-uv@v2 | |
| with: | |
| cache-dependency-path: pyproject.toml | |
| - name: Install AnnData | |
| run: uv pip install --system -e ".[dev,test,cu12]" llvmlite>=0.43 | |
| - name: Env list | |
| run: pip list | |
| - name: Run test | |
| run: pytest -m gpu --cov --cov-report=xml --cov-context=test | |
| - uses: codecov/codecov-action@v4 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| fail_ci_if_error: true | |
| verbose: true | |
| - name: Remove 'run-gpu-ci' Label | |
| if: always() | |
| uses: actions-ecosystem/action-remove-labels@v1 | |
| with: | |
| labels: "run-gpu-ci" | |
| github_token: ${{ secrets.GITHUB_TOKEN }} |