FIX: Add per-volume transforms as single transform in chain #471
Workflow file for this run
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| name: Deps & CI | |
| on: | |
| push: | |
| branches: [ '*' ] | |
| pull_request: | |
| branches: [ master, 'maint/*' ] | |
| schedule: | |
| - cron: '0 0 * * 1' | |
| # Allow job to be triggered manually from GitHub interface | |
| workflow_dispatch: | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| jobs: | |
| cache-test-data: | |
| if: "!contains(github.event.head_commit.message, '[skip ci]')" | |
| runs-on: ubuntu-latest | |
| env: | |
| TEST_DATA_HOME: /home/runner/testdata/nitransforms-tests | |
| outputs: | |
| SHA: ${{ steps.test-head.outputs.SHA }} | |
| steps: | |
| - name: Git settings (pacify DataLad) | |
| run: | | |
| git config --global user.name 'NiPreps Bot' | |
| git config --global user.email 'nipreps@gmail.com' | |
| - name: Install DataLad | |
| run: | | |
| $CONDA/bin/conda install -c conda-forge git-annex | |
| python -m pip install datalad datalad-next datalad-osf | |
| - name: Check remote HEAD | |
| id: test-head | |
| run: | | |
| git ls-remote https://gin.g-node.org/oesteban/nitransforms-tests \ | |
| | awk '/HEAD/{ print "SHA=" $1 }' >> $GITHUB_OUTPUT | |
| - uses: actions/cache@v4 | |
| with: | |
| path: ${{ env.TEST_DATA_HOME }} | |
| key: data-cache-v2-${{ steps.test-head.outputs.SHA }} | |
| restore-keys: | | |
| data-cache-v2-${{ steps.test-head.outputs.SHA }} | |
| data-cache-v2 | |
| - name: Install test data | |
| run: | | |
| export PATH=$CONDA/bin:$PATH | |
| mkdir -p /home/runner/testdata | |
| datalad install -s https://gin.g-node.org/oesteban/nitransforms-tests $TEST_DATA_HOME | |
| datalad update --merge -d $TEST_DATA_HOME | |
| datalad get -J 2 -d $TEST_DATA_HOME | |
| build-linux: | |
| if: "!contains(github.event.head_commit.message, '[skip ci]')" | |
| runs-on: ubuntu-latest | |
| needs: [cache-test-data] | |
| env: | |
| TEST_DATA_HOME: /home/runner/testdata/nitransforms-tests | |
| strategy: | |
| max-parallel: 5 | |
| matrix: | |
| python-version: ['3.8', '3.9', '3.10', '3.11', '3.12'] | |
| steps: | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - uses: actions/cache/restore@v4 | |
| with: | |
| path: ${{ env.TEST_DATA_HOME }} | |
| key: data-cache-v2-${{ needs.cache-test-data.outputs.SHA }} | |
| - uses: actions/checkout@v4 | |
| - name: Install minimal dependencies | |
| run: | | |
| pip install .[tests] | |
| - name: Run pytest | |
| run: | | |
| pytest -v --cov nitransforms --cov-config .coveragerc --cov-report xml:cov.xml --doctest-modules nitransforms/ | |
| - name: Submit code coverage | |
| uses: codecov/codecov-action@v4 | |
| with: | |
| files: cov.xml |