Feat: ML FLow integration #5087
This file contains hidden or 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 (cuda) | |
| on: | |
| push: | |
| branches: [main, "[0-9]+.[0-9]+.x"] #this is new | |
| pull_request: | |
| branches: [main, "[0-9]+.[0-9]+.x"] | |
| types: [labeled, synchronize, opened] | |
| #schedule: | |
| # - cron: "0 10 * * *" # runs at 10:00 UTC (03:00 PST) every day | |
| workflow_dispatch: | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| test: | |
| # if PR has label "cuda tests" or "all tests" or if scheduled or manually triggered | |
| if: >- | |
| ( | |
| contains(github.event.pull_request.labels.*.name, 'cuda tests') || | |
| contains(github.event.pull_request.labels.*.name, 'all tests') || | |
| contains(github.event_name, 'schedule') || | |
| contains(github.event_name, 'workflow_dispatch') | |
| ) | |
| runs-on: [self-hosted, Linux, X64, CUDA] | |
| defaults: | |
| run: | |
| shell: bash -e {0} # -e to fail on error | |
| container: | |
| image: ghcr.io/scverse/scvi-tools:py3.13-cu12-base | |
| #image: ghcr.io/scverse/scvi-tools:py3.13-cu12-${{ env.BRANCH_NAME }}-base | |
| options: --user root --gpus all --pull always | |
| name: integration | |
| env: | |
| OS: ${{ matrix.os }} | |
| PYTHON: ${{ matrix.python }} | |
| steps: | |
| #- name: Get the current branch name | |
| # id: vars | |
| # run: echo "BRANCH_NAME=$(echo $GITHUB_REF | awk -F'/' '{print $3}')" >> $GITHUB_ENV | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| cache: "pip" | |
| cache-dependency-path: "**/pyproject.toml" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip wheel uv | |
| python -m pip install nvidia-nccl-cu12 | |
| python -m uv pip install --system "scvi-tools[cuda,tests] @ ." | |
| - name: Run pytest | |
| env: | |
| MPLBACKEND: agg | |
| PLATFORM: ${{ matrix.os }} | |
| DISPLAY: :42 | |
| COLUMNS: 120 | |
| run: | | |
| coverage run -m pytest -v --color=yes --accelerator cuda --devices auto | |
| coverage report | |
| - uses: codecov/codecov-action@v4 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} |