MNT: Address deprecation warning in CI #60
Workflow file for this run
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| name: Tox | |
| on: | |
| push: | |
| branches: [ '**' ] | |
| tags: [ '*' ] | |
| pull_request: | |
| branches: [ master, 'maint/*' ] | |
| schedule: | |
| - cron: '0 0 * * *' | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| env: | |
| # Force tox and pytest to use color | |
| FORCE_COLOR: true | |
| jobs: | |
| build: | |
| if: github.repository == 'nipreps/niworkflows' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Set up Python 3 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3 | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Build niworkflows | |
| run: pipx run build | |
| - name: Check distributions | |
| run: pipx run twine check dist/* | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: dist | |
| path: dist/ | |
| get_data: | |
| if: github.repository == 'nipreps/niworkflows' | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - name: Create test data directory | |
| run: mkdir -p $HOME/.cache/stanford-crn | |
| - name: Load test data cache | |
| uses: actions/cache@v4 | |
| id: stanford-crn | |
| with: | |
| path: ~/.cache/stanford-crn/ | |
| key: data-v0-${{ github.ref_name }}-${{ github.sha }} | |
| restore-keys: | | |
| data-v0-${{ github.ref_name }}- | |
| data-v0- | |
| - name: Setup conda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-activate-base: true | |
| activate-environment: "" | |
| - name: Verify environment | |
| run: | | |
| conda info | |
| which python | |
| - name: Install datalad | |
| run: | | |
| python -m pip install datalad-installer | |
| datalad-installer --sudo ok git-annex | |
| python -m pip install datalad datalad-osf | |
| datalad wtf | |
| - name: Pacify git | |
| run: | | |
| git config --global user.email "[email protected]" | |
| git config --global user.name "Niworkflows Action" | |
| - name: Fetch test data | |
| run: | | |
| DS=$HOME/.cache/stanford-crn | |
| datalad install -r -s https://github.com/nipreps-data/niworkflows-data.git $DS | |
| cd $DS | |
| git -C BIDS-examples-1-enh-ds054 checkout enh/ds054 | |
| datalad update -r --merge -d . | |
| datalad get -J 2 -r ds000003 ds000030/sub-10228/func | |
| test: | |
| needs: [get_data] | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"] | |
| dependencies: [latest, pre] | |
| include: | |
| - python-version: "3.9" | |
| dependencies: min | |
| exclude: | |
| # Do not test pre-releases for versions out of SPEC0 | |
| - python-version: "3.9" | |
| dependencies: pre | |
| - python-version: "3.10" | |
| dependencies: pre | |
| env: | |
| DEPENDS: ${{ matrix.dependencies }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Install the latest version of uv | |
| uses: astral-sh/setup-uv@v4 | |
| - name: Load test data cache | |
| uses: actions/cache@v4 | |
| id: stanford-crn | |
| with: | |
| path: ~/.cache/stanford-crn/ | |
| key: data-v0-${{ github.ref_name }}-${{ github.sha }} | |
| - name: Load TemplateFlow cache | |
| uses: actions/cache@v4 | |
| id: templateflow | |
| with: | |
| path: ~/.cache/templateflow | |
| key: templateflow-v0-${{ github.ref_name }}-${{ strategy.job-index }}-${{ github.sha }} | |
| restore-keys: | | |
| templateflow-v0-${{ github.ref_name }}- | |
| templateflow-v0- | |
| - uses: actions/cache@v4 | |
| with: | |
| path: ~/.cache/templateflow | |
| key: templateflow-v1 | |
| - name: Install dependencies | |
| run: | | |
| sudo apt update | |
| sudo apt install -y --no-install-recommends graphviz | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Install tox | |
| run: | | |
| uv tool install tox --with=tox-uv --with=tox-gh-actions | |
| - name: Show tox config | |
| run: tox c | |
| - name: Run tox | |
| run: tox -v --exit-and-dump-after 1200 | |
| - uses: codecov/codecov-action@v5 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| if: ${{ always() }} | |
| checks: | |
| runs-on: 'ubuntu-latest' | |
| continue-on-error: true | |
| strategy: | |
| matrix: | |
| check: ['style', 'spellcheck'] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install the latest version of uv | |
| uses: astral-sh/setup-uv@v4 | |
| - name: Install tox | |
| run: uv tool install tox --with=tox-uv | |
| - name: Show tox config | |
| run: tox c | |
| - name: Show tox config (this call) | |
| run: tox c -e ${{ matrix.check }} | |
| - name: Run check | |
| run: tox -e ${{ matrix.check }} |