[ENH] Add support for ragged connections with multivariate methods with padding #648
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| 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 |