IO: treat arrays with an empty shape like scalars when writing #3381
Workflow file for this run
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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 }} |