fix doctest for NeuronCriteria #48
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name: Tests | |
on: [push, pull_request] | |
jobs: | |
build: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: | |
- "3.9" | |
- "3.10" | |
- "3.11" | |
# - "3.12" | |
steps: | |
# This cancels any such job that is still runnning | |
- name: Cancel Previous Runs | |
uses: styfle/cancel-workflow-action@0.6.0 | |
with: | |
access_token: ${{ github.token }} | |
- uses: actions/checkout@v4 | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-version }} | |
- name: Install Linux libraries | |
run: | | |
sudo apt-get install -y libdbus-1-3 libxkbcommon-x11-0 libxcb-icccm4 \ | |
libxcb-image0 libxcb-keysyms1 libxcb-randr0 libxcb-render-util0 \ | |
libxcb-xinerama0 libxcb-xinput0 libxcb-xfixes0 | |
- name: Install dependencies | |
run: | | |
pip install --upgrade pip | |
pip install zstandard==0.16.0 | |
pip install numpy | |
pip install flybrains | |
pip install pyarrow | |
- name: Install fafbseb | |
run: pip install -e . | |
- name: Report dependency versions | |
run: pip freeze -r requirements.txt | |
- name: Set FlyWire CAVE token for tests | |
env: | |
CAVE_TOKEN: ${{ secrets.cave_token }} | |
run: | | |
python -c "from fafbseg import flywire;flywire.set_chunkedgraph_secret('$CAVE_TOKEN')" | |
- name: Test with pytest | |
run: | | |
export NAVIS_HEADLESS=TRUE | |
pytest --verbose |