Fix CI (Python + MATLAB) and three small bugs in stats #798
Workflow file for this run
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| name: Python Unit Tests | |
| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| jobs: | |
| unittests: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ['3.10', '3.11', '3.12'] | |
| os: [ubuntu-latest, windows-latest, macos-latest] | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Dependencies | |
| shell: bash | |
| run: | | |
| # setuptools 81+ no longer ships the legacy `pkg_resources` module on | |
| # import, but transitive deps (e.g. abagen 0.1.3 in | |
| # brainstat/context/genetics.py) still rely on it. Pin <81 so test | |
| # collection succeeds; revisit when abagen drops the pkg_resources | |
| # import. | |
| python -m pip install --upgrade pip | |
| python -m pip install 'setuptools<81' wheel | |
| [[ -z $(git remote show origin | grep "Fetch URL:" | grep git@github.com:MICA-MNI/BrainStat.git) ]] && git config remote.upstream.fetch refs/heads/*:refs/remotes/upstream/* || git config remote.origin.fetch refs/heads/*:refs/origin/upstream/* | |
| git fetch origin test-data-2.0 | |
| python -m pip install -e .[dev] | |
| # Reinstall pinned setuptools in case the editable install pulled it | |
| # back up to 81+. | |
| python -m pip install --force-reinstall 'setuptools<81' | |
| - name: Test with pytest | |
| shell: bash | |
| run: | | |
| python3 -m pytest | |
| # mypy: | |
| # runs-on: ubuntu-latest | |
| # steps: | |
| # - uses: actions/checkout@v2 | |
| # - name: Set up Python 3.9 | |
| # uses: actions/setup-python@v2 | |
| # with: | |
| # python-version: 3.9 | |
| # - name: Install Dependencies | |
| # shell: bash | |
| # run: | | |
| # python -m pip install -e .[dev] | |
| # python -m pip install numpy==1.21.5 | |
| # - name: Test with mypy | |
| # shell: bash | |
| # run: | | |
| # python3 -m mypy $(find brainstat -path "*tests*" -prune -false -o -name "*.py") | |
| # lint: | |
| # runs-on: ubuntu-latest | |
| # steps: | |
| # - uses: actions/checkout@v2 | |
| # - uses: actions/setup-python@v2 | |
| # with: | |
| # python-version: 3.8 | |
| # - uses: psf/black@stable | |
| # with: | |
| # black_args: ". --check" | |