Merge pull request #753 from nipype/pre-commit-ci-update-config #1277
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| 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: [3.8, 3.9, "3.10", "3.11"] | |
| 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 |