Draft implementation of proposed syntax changes (feedback requested) #1303
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: Singularity | |
| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| build: | |
| name: Build | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ['3.10', '3.11', '3.12', '3.13'] | |
| fail-fast: False | |
| steps: | |
| - name: Set env | |
| run: | | |
| echo "RELEASE_VERSION=v3.7.1" >> $GITHUB_ENV | |
| echo "NO_ET=TRUE" >> $GITHUB_ENV | |
| - name: Setup Singularity | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: hpcng/singularity | |
| ref: 'v3.7.1' | |
| path: 'singularity' | |
| - name: Setup GO | |
| uses: actions/setup-go@v5 | |
| with: | |
| go-version: '^1.13' | |
| - name: Install OS deps | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install flawfinder squashfs-tools uuid-dev libuuid1 libffi-dev libssl-dev libssl1.1 \ | |
| libarchive-dev libgpgme11-dev libseccomp-dev wget gcc make pkg-config -y | |
| - name: Build | |
| run: | | |
| cd singularity | |
| ./mconfig --without-suid -p /usr/local/ | |
| make -C ./builddir | |
| sudo make -C ./builddir install | |
| cd .. | |
| - name: Echo singularity version | |
| run: | | |
| echo ${{ github.ref }} | |
| singularity --version | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Update build tools | |
| run: python -m pip install --upgrade pip | |
| - name: Checkout Pydra repo | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: ${{ github.repository }} | |
| - name: Install pydra (test) | |
| run: pip install -e ".[test]" | |
| - name: Pytest | |
| run: pytest -vs --cov pydra --cov-config .coveragerc --cov-report xml:cov.xml pydra/engine/tests/test_singularity.py | |
| - name: Upload to codecov | |
| run: codecov -f cov.xml -F unittests -e GITHUB_WORKFLOW |