Adding support for more .nwb training data to SLEAP #569
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
| # Continuous integration | |
| name: CI | |
| on: | |
| pull_request: | |
| types: [opened, reopened, synchronize] | |
| paths: | |
| - "sleap_io/**" | |
| - "tests/**" | |
| - ".github/workflows/ci.yml" | |
| - "environment.yml" | |
| push: | |
| branches: | |
| - main | |
| paths: | |
| - "sleap_io/**" | |
| - "tests/**" | |
| - ".github/workflows/ci.yml" | |
| - "environment.yml" | |
| jobs: | |
| # Lint with black and docstring check with pydocstyle | |
| lint: | |
| # This job runs: | |
| # | |
| # 1. Linting with black | |
| # | |
| # 2. Docstring style checking with pydocstyle | |
| # Note: This uses Google-style docstring convention | |
| # Ref: https://google.github.io/styleguide/pyguide.html | |
| name: Lint | |
| runs-on: "ubuntu-latest" | |
| steps: | |
| - name: Checkout repo | |
| uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.12" | |
| - name: Install dependencies | |
| run: | | |
| pip install --editable .[dev] | |
| - name: Run Black | |
| run: | | |
| black --check sleap_io tests | |
| - name: Run pydocstyle | |
| run: | | |
| pydocstyle --convention=google sleap_io/ | |
| # Tests with pytest | |
| tests: | |
| timeout-minutes: 15 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: ["ubuntu-latest", "windows-latest", "macos-14"] | |
| python: ["3.8", "3.12"] | |
| exclude: | |
| - os: "macos-14" | |
| python: "3.8" | |
| name: Tests (${{ matrix.os }}, Python ${{ matrix.python }}) | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - name: Checkout repo | |
| uses: actions/checkout@v3 | |
| - name: Setup Conda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| miniforge-version: latest | |
| conda-solver: "libmamba" | |
| environment-file: environment.yml | |
| activate-environment: sleap-io | |
| python-version: ${{ matrix.python }} | |
| - name: Print environment info | |
| shell: bash -l {0} | |
| run: | | |
| which python | |
| conda info | |
| conda list | |
| pip freeze | |
| - name: Install graphics dependencies on Ubuntu | |
| # https://github.com/conda-forge/opencv-feedstock/issues/401 | |
| if: ${{ startsWith(matrix.os, 'ubuntu') }} | |
| shell: bash -l {0} | |
| run: | | |
| sudo apt-get update && sudo apt-get install libglapi-mesa libegl-mesa0 libegl1 libopengl0 libgl1-mesa-glx | |
| - name: Test with pytest (with coverage) | |
| shell: bash -l {0} | |
| run: | | |
| pytest --cov=sleap_io --cov-report=xml --durations=-1 tests/ | |
| - name: Upload coverage | |
| uses: codecov/codecov-action@v4 | |
| with: | |
| fail_ci_if_error: true | |
| verbose: false | |
| token: ${{ secrets.CODECOV_TOKEN }} |