Scheduled weekly dependency update for week 52 #667
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: Pull Request CI | |
| # Controls when the action will run. Triggers the workflow on push or pull request | |
| # events but only for the master branch | |
| on: | |
| workflow_dispatch: | |
| pull_request: | |
| paths: | |
| - requirements-test-libraries.txt | |
| env: | |
| # Colored pytest output on CI despite not having a tty | |
| FORCE_COLOR: 1 | |
| permissions: | |
| contents: read # to fetch code (actions/checkout) | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python-version: ['3.8', '3.9', '3.10', '3.11', '3.12', '3.13'] | |
| pyinstaller: ["https://github.com/pyinstaller/pyinstaller/archive/develop.zip"] | |
| os: ["macos-13", "macos-14", "ubuntu-22.04", "windows-latest"] | |
| fail-fast: false | |
| env: | |
| # Rebuild bootloader when installing PyInstaller from develop branch | |
| PYINSTALLER_COMPILE_BOOTLOADER: 1 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Limit dependencies to only new/changed libraries. | |
| if: "${{ github.event.pull_request }}" | |
| shell: bash | |
| run: | | |
| git fetch origin ${{ github.base_ref }} | |
| set +e | |
| # NOTE: we need to be compatible with both GNU diff and Apple/FreeBSD diff | |
| diff \ | |
| <(git show origin/${{ github.base_ref }}:requirements-test-libraries.txt) \ | |
| <(git show HEAD:requirements-test-libraries.txt) \ | |
| | grep -E "^>" | sed "s/^> //" \ | |
| > requirements-test-libraries.txt | |
| set -e | |
| echo '-r requirements-test.txt' >> requirements-test-libraries.txt | |
| cat requirements-test-libraries.txt | |
| - name: Set up .NET Core for pythonnet tests | |
| uses: actions/setup-dotnet@v4 | |
| with: | |
| dotnet-version: '6.x' | |
| # Install MariaDB Connector/C from official MariaDB Community Server | |
| # repository. The version shipped with ubuntu-20.04 is too old for | |
| # the "mariadb" python package. | |
| - name: Install MariaDB Connector/C | |
| if: startsWith(matrix.os, 'ubuntu') | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y wget apt-transport-https | |
| wget https://downloads.mariadb.com/MariaDB/mariadb_repo_setup | |
| echo "ceaa5bd124c4d10a892c384e201bb6e0910d370ebce235306d2e4b860ed36560 mariadb_repo_setup" | sha256sum -c - | |
| chmod +x mariadb_repo_setup | |
| sudo ./mariadb_repo_setup | |
| sudo apt-get install -y libmariadb3 libmariadb-dev | |
| - name: Install apt dependencies | |
| if: startsWith(matrix.os, 'ubuntu') | |
| run: | | |
| sudo apt-get update | |
| # Set up a virtual screen (for GUI libraries and pynput). | |
| sudo apt-get install libxcb-xkb-dev xvfb | |
| Xvfb :99 & echo "DISPLAY=:99" >> $GITHUB_ENV | |
| # Install PyQt5 (qtmodern) dependencies. | |
| sudo apt-get install -y libxcb-image0 libxcb-keysyms1 libxcb-render-util0 \ | |
| libxkbcommon-x11-0 libxcb-icccm4 libxcb1 openssl \ | |
| libxcb-randr0-dev libxcb-xtest0-dev libxcb-xinerama0-dev \ | |
| libxcb-shape0-dev libxcb-xkb-dev libopengl0 libegl1 \ | |
| libpulse0 libpulse-mainloop-glib0 | |
| # Install cairo dependencies. | |
| sudo apt-get install -y libcairo2 | |
| # Install libdiscid (dependency of discid python package). | |
| sudo apt-get install -y libdiscid0 | |
| # These are dependencies of gmsh | |
| sudo apt-get install -y libglu1 libgl1 libxrender1 libxcursor1 libxft2 \ | |
| libxinerama1 libgomp1 | |
| # Required by PyGObject (dependency of toga/toga-gtk) | |
| sudo apt-get install -y gir1.2-gtk-3.0 libgirepository1.0-dev | |
| - name: Install brew dependencies | |
| if: startsWith(matrix.os, 'macos') | |
| run: | | |
| # `pkg-config` is deprecated and superseded by `pkgconf`, but it is still pre-installed on the GitHub Actions | |
| # runner. This leads to `brew link` errors when `pkgconf` is installed as part of dependencies. So for now, | |
| # manually remove `pkg-config` (and specifically, the problematic `[email protected]`). | |
| brew uninstall pkg-config || : | |
| brew uninstall [email protected] || : | |
| # Install cairo dependencies. | |
| brew install cairo | |
| # Install pango dependencies (weasyprint hook). | |
| brew install pango | |
| # Install libdiscid (dependency of discid python package). | |
| brew install libdiscid | |
| # Install lsl library for pylsl | |
| brew install labstreaminglayer/tap/lsl | |
| # This one is required by eccodes (binary wheels with bundled eccodes | |
| # library are provided only for macOS 13+). | |
| brew install eccodes | |
| - name: Install dependencies | |
| shell: bash | |
| run: | | |
| # Upgrade to the latest pip. | |
| python -m pip install -U pip "setuptools<71.0.0" wheel | |
| # Install hooks-contrib | |
| pip install -e . | |
| # Install test libraries | |
| pip install --prefer-binary -r requirements-test-libraries.txt | |
| # Additional implied dependencies of test libraries | |
| # pyqtgraph requires Qt bindings - use PyQt5 | |
| pip show -qq pyqtgraph && pip install --prefer-binary PyQt5 | |
| # NOTE: specify minimum allowed version for sudachidict-* packages, to prevent pip from installing invalid | |
| # SudachiDict_full-0.0.0-py3-none-any.whl due to --prefer-binary switch used with pip install... | |
| pip show -qq sudachipy && pip install --prefer-binary "sudachidict-small>=20230927" "sudachidict-core>=20230927" "sudachidict-full>=20230927" | |
| # pythainlp requires python-crfsuite, but fails to declare it as a requirement. | |
| pip show -qq pythainlp && pip install --prefer-binary python-crfsuite | |
| # tests for various trame-* packages require base trame package as well | |
| pip show -qq trame-client trame-code trame-components trame-datagrid trame-deckgl trame-formkit trame-grid-layout trame-iframe trame-keycloak trame-leaflet trame-markdown trame-matplotlib trame-mesh-streamer trame-plotly trame-pvui trame-quasar trame-rca trame-router trame-server trame-simput trame-tauri trame-tweakpane trame-vega trame-vtk trame-vtk3d trame-vtklocal trame-vuetify trame-xterm && pip install --prefer-binary trame | |
| pip show -qq trame-vtk && pip install --prefer-binary vtk pyvista nest-asyncio trame-vuetify | |
| pip show -qq trame-mesh-streamer && pip install --prefer-binary vtk | |
| # test_xarray_chunk requires dask in addition to xarray | |
| pip show -qq xarray && pip install --prefer-binary dask | |
| # Install PyInstaller | |
| pip install ${{ matrix.pyinstaller }} | |
| - name: Run tests | |
| run: pytest -v | |
| # Conditionally enable slow tests, so that they are ran only if | |
| # their corresponding packages are explicitly installed but not | |
| # if they are installed as dependencies of some other package. | |
| - name: Check if slow tests are required (scikit-learn) | |
| id: check-scikit-learn | |
| shell: bash | |
| run: | | |
| grep -E "scikit-learn" requirements-test-libraries.txt && echo "AVAILABLE=yes" >> $GITHUB_OUTPUT || echo "AVAILABLE=no" >> $GITHUB_OUTPUT | |
| - name: Run slow tests (scikit-learn) | |
| if: ${{ steps.check-scikit-learn.outputs.AVAILABLE == 'yes' }} | |
| run: pytest -v -m slow -k sklearn | |
| - name: Check if slow tests are required (scikit-image) | |
| id: check-scikit-image | |
| shell: bash | |
| run: | | |
| grep -E "scikit-image" requirements-test-libraries.txt && echo "AVAILABLE=yes" >> $GITHUB_OUTPUT || echo "AVAILABLE=no" >> $GITHUB_OUTPUT | |
| - name: Run slow tests (scikit-image) | |
| if: ${{ steps.check-scikit-image.outputs.AVAILABLE == 'yes' }} | |
| run: pytest -v -m slow -k skimage |