tests.yml

name: neuromaps-tests

on:
  workflow_dispatch:
  push:
    branches:
      - main
  pull_request:

jobs:
  check_style:
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@v4
        with:
          fetch-depth: 0
      - name: Set up Python 3.8
        uses: actions/setup-python@v4
        with:
          python-version: 3.8
      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          python -m pip install ruff
      - name: Run style checks
        run: ruff check .
  codespell:
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@v4
        with:
          fetch-depth: 0
      - name: Run codespell
        uses: codespell-project/actions-codespell@v2
  
  run_tests:
    runs-on: ${{ matrix.os }}
    strategy:
      matrix:
        os: ['ubuntu-latest']
        python-version: ['3.8', '3.9', '3.10', '3.11', '3.12']
    steps:
      - name: Checkout code
        uses: actions/checkout@v4
        with:
          fetch-depth: 0
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}
      - name: Display Python version
        run: python -c "import sys; print(sys.version)"
      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          python -m pip install -r requirements.txt
          python -m pip install pytest pytest-cov codecov
          python -m pip install git+https://github.com/netneurolab/netneurotools
      - name: Install connectome workbench
        run: |
          while true; do
            wget --retry-connrefused --waitretry=1 --read-timeout=20 --timeout=15 -t 0 --no-dns-cache -c \
              https://www.humanconnectome.org/storage/app/media/workbench/workbench-linux64-v1.5.0.zip && break
          done
          unzip workbench-linux64-v1.5.0.zip -d ${HOME}
          echo "$HOME/workbench/bin_linux64" >> $GITHUB_PATH
      - name: Install neuromaps
        run: python -m pip install .
      - name: Print neuromaps version
        run: python -c "import neuromaps; print(neuromaps.__version__)"
      - name: Test submodule import
        run: |
          cd ..
          python -c "from neuromaps import parcellate; from neuromaps.datasets import available_annotations"
      - name: Run tests
        run: pytest --doctest-modules --cov=neuromaps --cov-report=xml --junitxml=junit/test-results.xml --verbose --pyargs neuromaps
      - uses: codecov/codecov-action@v3
        with:
          files: ./coverage.xml
          verbose: true
      - name: Upload pytest test results
        uses: actions/upload-artifact@v3
        with:
          name: pytest-results-${{ matrix.os }}-${{ matrix.python-version }}
          path: junit/test-results.xml