[MAINT] Update to new Python and dev tools #591
Workflow file for this run
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| name: test_suite | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.type }} | |
| cancel-in-progress: true | |
| on: | |
| pull_request: | |
| paths: | |
| - "**" | |
| push: | |
| branches: [main] | |
| paths: | |
| - "**.py" | |
| tags: | |
| - "v*.*.*" | |
| env: | |
| INSTALLDIR: "build-install" | |
| CCACHE_DIR: "${{ github.workspace }}/.ccache" | |
| jobs: | |
| style: | |
| timeout-minutes: 10 | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python 3.9 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.9" | |
| architecture: "x64" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --progress-bar off --upgrade pip setuptools wheel | |
| python -m pip install --progress-bar off .[style] | |
| - name: Run flake8 | |
| uses: py-actions/flake8@v2 | |
| with: | |
| path: "mne_hfo" | |
| - name: Run isort | |
| uses: isort/isort-action@master | |
| - name: Run black | |
| uses: psf/black@stable | |
| with: | |
| options: "--check --verbose" | |
| - name: Run codespell | |
| uses: codespell-project/actions-codespell@master | |
| with: | |
| check_filenames: true | |
| check_hidden: true | |
| skip: "./.git,./build,./.mypy_cache,./.pytest_cache,./.codespellignore,./doc/tutorials/*" | |
| ignore_words_file: ./.codespellignore | |
| - name: Run pydocstyle | |
| run: pydocstyle . | |
| - name: Run mypy | |
| uses: jpetrucciani/mypy-check@master | |
| with: | |
| path: "./mne_hfo" | |
| mypy_flags: "--config-file pyproject.toml" | |
| - name: Run bibclean | |
| run: bibclean-check doc/references.bib | |
| build: | |
| timeout-minutes: 10 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu, macos, windows] | |
| python-version: [3.8, 3.9, "3.10", "3.11"] | |
| name: build ${{ matrix.os }} - py${{ matrix.python-version }} | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: "x64" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --progress-bar off --upgrade pip setuptools wheel | |
| python -m pip install --progress-bar off .[build] | |
| - name: Test package install | |
| run: python -c "import mne_hfo; print(mne_hfo.__version__)" | |
| - name: Remove package install | |
| run: python -m pip uninstall -yq mne_hfo | |
| - name: Build package | |
| run: python -m build | |
| - name: Upload package distribution files | |
| if: ${{ matrix.os == 'ubuntu' && matrix.python-version == '3.10' }} | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: package | |
| path: dist | |
| - name: Install sdist | |
| run: pip install ./dist/*.tar.gz | |
| - name: Test sdist install | |
| run: python -c "import mne_hfo; print(mne_hfo.__version__)" | |
| - name: Remove sdist install | |
| run: python -m pip uninstall -yq mne_hfo | |
| - name: Install wheel | |
| run: pip install ./dist/*.whl | |
| - name: Test wheel install | |
| run: python -c "import mne_hfo; print(mne_hfo.__version__)" | |
| - name: Remove wheel install | |
| run: python -m pip uninstall -yq mne_hfo | |
| test: | |
| timeout-minutes: 30 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu, macos, windows] | |
| python-version: [3.8, "3.11"] # oldest and newest supported versions | |
| mne: [stable, main] | |
| name: pytest ${{ matrix.os }} - py${{ matrix.python-version }} - MNE ${{ matrix.mne }} | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| with: | |
| path: main # clone repository in a sub-directory | |
| - name: Setup Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: "x64" | |
| - name: Setup headless display | |
| uses: pyvista/setup-headless-display-action@main | |
| with: | |
| qt: true | |
| - name: Install package | |
| run: | | |
| python -m pip install --progress-bar off --upgrade pip setuptools wheel | |
| python -m pip install --progress-bar off main/.[test] | |
| # We install both MNE Python and BIDS to be in-line with their latest version | |
| - name: Install MNE (main) | |
| if: "matrix.mne == 'main'" | |
| run: | | |
| python -m pip uninstall -yq mne | |
| python -m pip install git+https://github.com/mne-tools/mne-python | |
| python -m pip install git+https://github.com/mne-tools/mne-bids | |
| - name: Display MNE infos | |
| run: mne sys_info | |
| - name: Retrieve MNE/MNE-HFO testing dataset version | |
| run: | | |
| curl https://raw.githubusercontent.com/mne-tools/mne-testing-data/master/version.txt -o mne_testing_data_version.txt | |
| curl https://raw.githubusercontent.com/adam2392/mne-testing-icalabel-data/main/version.txt -o mne_hfo_testing_data_version.txt | |
| - name: Cache MNE/ICA-Label testing dataset | |
| uses: actions/cache@v3 | |
| with: | |
| key: ${{ matrix.os }}-${{ matrix.mne }}-${{ hashFiles('mne_testing_data_version.txt') }}-${{ hashFiles('mne_hfo_testing_data_version.txt') }} | |
| path: ~/mne_data | |
| - name: Download MNE/MNE-HFO testing dataset | |
| run: | | |
| python -c "import mne; mne.datasets.testing.data_path()" | |
| - name: Run pytest | |
| run: pytest main/mne_hfo --cov=main/mne_hfo --cov-report=xml --cov-config=main/pyproject.toml | |
| - name: Upload coverage stats to codecov | |
| if: ${{ matrix.os == 'ubuntu' && matrix.python-version == '3.10' && matrix.mne == 'stable' }} | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| files: ./coverage.xml | |
| flags: unittests # optional | |
| name: codecov-umbrella # optional | |
| fail_ci_if_error: true # optional (default = false) | |
| verbose: true # optional (default = false) | |