[ENH] Add support for ragged connections with multivariate methods with padding #661
Workflow file for this run
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| name: 'unit_tests' | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.type }} | |
| cancel-in-progress: true | |
| on: | |
| push: | |
| branches: | |
| - 'main' | |
| pull_request: | |
| branches: | |
| - '*' | |
| jobs: | |
| # Run style tests | |
| style: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ ubuntu-latest ] | |
| python-version: [ 3.9 ] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v1 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install pip | |
| run: | | |
| pip install --upgrade pip | |
| pip install --upgrade --upgrade-strategy eager -r requirements.txt | |
| pip install --upgrade --upgrade-strategy eager -r requirements_testing.txt | |
| - name: Run style & documentation tests | |
| run: make pep | |
| # Run installation tests | |
| build: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ ubuntu-latest, macos-latest ] | |
| python-version: [ 3.8, 3.9, '3.10' ] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| # with: | |
| # path: ~/.cache/pip | |
| # key: ${{ hashFiles('setup.py') }}-${{ hashFiles('test-requirements.txt') }}-${{ hashFiles('requirements.txt') }} | |
| - run: | | |
| curl https://raw.githubusercontent.com/mne-tools/mne-python/main/tools/setup_xvfb.sh -o setup_xvfb.sh | |
| chmod +x setup_xvfb.sh | |
| ./setup_xvfb.sh | |
| name: 'Setup xvfb' | |
| if: runner.os == 'Linux' | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v1 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| pip install --upgrade --upgrade-strategy eager -r requirements.txt | |
| pip install --upgrade --upgrade-strategy eager -r requirements_testing.txt | |
| # TODO: doesn't work segfault cuz of pyvista? | |
| # - shell: bash -el {0} | |
| # run: mne sys_info | |
| # name: Print config | |
| # TODO: why doesn't this work on mac? | |
| # - shell: bash -el {0} | |
| # run: python -c "import mne; print(mne.datasets.testing.data_path(verbose=True))" | |
| # name: 'Get test data' | |
| # build with sdist directly | |
| - uses: actions/checkout@v2 | |
| - name: Build sdist | |
| run: python setup.py sdist | |
| - name: Install sdist | |
| run: pip install ./dist/mne-connectivity-* | |
| - name: Clean up working directory | |
| run: rm -rf ./* | |
| - name: Try importing mne_connectivity | |
| run: python -c 'import mne_connectivity; print(mne_connectivity.__version__)' | |
| - name: Remove sdist install | |
| run: pip uninstall -y mne-connectivity | |
| # build with build wheet | |
| - uses: actions/checkout@v2 | |
| - name: Build wheel | |
| run: python setup.py bdist_wheel | |
| - name: Install wheel | |
| run: pip install ./dist/mne_connectivity-*.whl | |
| - name: Clean up working directory | |
| run: rm -rf ./* | |
| - name: Try importing mne_connectivity | |
| run: python -c 'import mne_connectivity; print(mne_connectivity.__version__)' | |
| - name: Remove wheel install | |
| run: pip uninstall -y mne-connectivity | |
| - uses: actions/checkout@v2 | |
| - name: Test extras install | |
| run: | | |
| pip install .[full] | |
| python -c 'import mne_connectivity; print(mne_connectivity.__version__)' | |
| # Run unit tests | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| include: | |
| - os: ubuntu-latest | |
| python-version: 3.8 | |
| mne-version: mne-main | |
| - os: ubuntu-latest | |
| python-version: "3.10" | |
| mne-version: mne-main | |
| - os: macos-latest | |
| python-version: "3.10" | |
| mne-version: mne-main | |
| env: | |
| TZ: Europe/Berlin | |
| FORCE_COLOR: true | |
| DISPLAY: ':99.0' | |
| MNE_LOGGING_LEVEL: 'info' | |
| OPENBLAS_NUM_THREADS: '1' | |
| PYTHONUNBUFFERED: '1' | |
| steps: | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v1 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - uses: actions/checkout@v2 | |
| # with: | |
| # path: ~/.cache/pip | |
| # key: ${{ hashFiles('setup.py') }}-${{ hashFiles('test-requirements.txt') }}-${{ hashFiles('requirements.txt') }} | |
| - run: | | |
| curl https://raw.githubusercontent.com/mne-tools/mne-python/main/tools/setup_xvfb.sh -o setup_xvfb.sh | |
| chmod +x setup_xvfb.sh | |
| ./setup_xvfb.sh | |
| name: 'Setup xvfb' | |
| if: runner.os == 'Linux' | |
| - name: Install dependencies | |
| run: | | |
| pip install --upgrade --upgrade-strategy eager -r requirements.txt | |
| pip install --upgrade --upgrade-strategy eager -r requirements_testing.txt | |
| - name: Install MNE (stable) | |
| if: "matrix.mne-version == 'mne-stable'" | |
| run: | | |
| pip install --upgrade mne | |
| - name: Install MNE (main) | |
| if: "matrix.mne-version == 'mne-main'" | |
| run: | | |
| git clone --depth 1 https://github.com/mne-tools/mne-python.git -b main | |
| pip install -e ./mne-python | |
| - name: Display versions and environment information | |
| run: | | |
| echo $TZ | |
| date | |
| python --version | |
| which python | |
| - name: Install MNE-connectivity | |
| run: | | |
| pip install --no-deps . | |
| - shell: bash -el {0} | |
| run: mne sys_info | |
| name: 'Show infos' | |
| - name: Run pytest | |
| run: | | |
| python -m pytest . --cov=mne_connectivity --cov-report=xml --cov-config=setup.cfg --verbose --ignore mne-python | |
| shell: bash | |
| - name: Upload coverage stats to codecov | |
| if: "matrix.os == 'ubuntu-latest'" | |
| uses: codecov/codecov-action@v1 | |
| with: | |
| file: ./coverage.xml |