New feature for removing heart artifacts from EEG or ESG data using a Principal Component Analysis - Optimal Basis Sets (PCA-OBS) algorithm #6071
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| name: 'Tests' | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.ref }} | |
| cancel-in-progress: true | |
| on: # yamllint disable-line rule:truthy | |
| push: | |
| branches: ["main", "maint/*"] | |
| pull_request: | |
| branches: ["main", "maint/*"] | |
| permissions: | |
| contents: read | |
| jobs: | |
| style: | |
| name: Style | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 3 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| persist-credentials: false | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.12' | |
| - uses: pre-commit/[email protected] | |
| - run: pip install mypy numpy scipy vulture | |
| - run: mypy | |
| - run: vulture | |
| bandit: | |
| name: Bandit | |
| needs: style | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: davidslusser/[email protected] | |
| with: | |
| src: "mne" | |
| options: "-c pyproject.toml -ll -r" | |
| pip_install_command: "pip install bandit[toml]" | |
| pytest: | |
| name: '${{ matrix.os }} / ${{ matrix.kind }} / ${{ matrix.python }}' | |
| needs: style | |
| timeout-minutes: 80 | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| env: | |
| PYTHON_VERSION: '${{ matrix.python }}' | |
| MKL_NUM_THREADS: '1' | |
| OPENBLAS_NUM_THREADS: '1' | |
| PYTHONUNBUFFERED: '1' | |
| MNE_CI_KIND: '${{ matrix.kind }}' | |
| CI_OS_NAME: '${{ matrix.os }}' | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| include: | |
| - os: ubuntu-latest | |
| python: '3.13' | |
| kind: pip | |
| - os: ubuntu-latest | |
| python: '3.12' | |
| kind: pip-pre | |
| - os: ubuntu-latest | |
| python: '3.12' | |
| kind: conda | |
| - os: macos-latest # arm64 (Apple Silicon) | |
| python: '3.12' | |
| kind: mamba | |
| - os: macos-13 # latest Intel release | |
| python: '3.12' | |
| kind: mamba | |
| - os: windows-latest | |
| python: '3.10' | |
| kind: mamba | |
| - os: ubuntu-latest | |
| python: '3.10' | |
| kind: minimal | |
| - os: ubuntu-20.04 | |
| python: '3.10' | |
| kind: old | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| persist-credentials: false | |
| - run: ./tools/github_actions_env_vars.sh | |
| # Xvfb/OpenGL | |
| - uses: pyvista/setup-headless-display-action@v3 | |
| with: | |
| qt: true | |
| pyvista: false | |
| wm: false | |
| # Python (if pip) | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| if: startswith(matrix.kind, 'pip') | |
| # Python (if conda) | |
| - name: Fixes for conda | |
| run: | | |
| # For some reason on Linux we get crashes | |
| if [[ "$RUNNER_OS" == "Linux" ]]; then | |
| sed -i "/numba/d" environment.yml | |
| elif [[ "$RUNNER_OS" == "macOS" ]]; then | |
| sed -i "" "s/ - PySide6 .*/ - PySide6 <6.8/g" environment.yml | |
| fi | |
| if: matrix.kind == 'conda' || matrix.kind == 'mamba' | |
| - uses: mamba-org/setup-micromamba@v2 | |
| with: | |
| environment-file: ${{ env.CONDA_ENV }} | |
| environment-name: mne | |
| create-args: >- | |
| python=${{ env.PYTHON_VERSION }} | |
| if: ${{ !startswith(matrix.kind, 'pip') }} | |
| - run: bash ./tools/github_actions_dependencies.sh | |
| # Minimal commands on Linux (macOS stalls) | |
| - run: bash ./tools/get_minimal_commands.sh | |
| if: startswith(matrix.os, 'ubuntu') && matrix.kind != 'minimal' && matrix.kind != 'old' | |
| - run: bash ./tools/github_actions_infos.sh | |
| # Check Qt | |
| - run: bash ./tools/check_qt_import.sh $MNE_QT_BACKEND | |
| if: env.MNE_QT_BACKEND != '' | |
| - name: Run tests with no testing data | |
| run: MNE_SKIP_TESTING_DATASET_TESTS=true pytest -m "not (ultraslowtest or pgtest)" --tb=short --cov=mne --cov-report xml -vv -rfE mne/ | |
| if: matrix.kind == 'minimal' | |
| - run: ./tools/get_testing_version.sh | |
| - uses: actions/cache@v4 | |
| with: | |
| key: ${{ env.TESTING_VERSION }} | |
| path: ~/mne_data | |
| - run: bash ./tools/github_actions_download.sh | |
| - run: bash ./tools/github_actions_test.sh # for some reason on macOS we need to run "bash X" in order for a failed test run to show up | |
| - uses: codecov/codecov-action@v5 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| if: success() || failure() |