improve read_tiff: #40
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| name: Test tutorials | |
| on: [push] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| # This cancels any such job that is still running | |
| - name: Cancel Previous Runs | |
| uses: styfle/[email protected] | |
| with: | |
| access_token: ${{ github.token }} | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python 3.10 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.10' | |
| - name: Install graphviz | |
| run: | | |
| sudo apt-get update -y -qq | |
| 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 graphviz graphviz-dev \ | |
| libegl1-mesa libgl1-mesa-dri libxcb-xfixes0-dev mesa-vulkan-drivers \ | |
| libxcb-cursor0 | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install pathos pygraphviz neuron cloud-volume k3d scikit-image open3d | |
| python -m pip install -e .[test-notebook,all] | |
| - name: Download test data | |
| run: | | |
| chmod +x download_test_data.sh | |
| ./download_test_data.sh | |
| - name: Download downsampled test transform | |
| run: | | |
| mkdir -p -- $HOME/flybrain-data | |
| curl -o $HOME/flybrain-data/JRC2018F_JRCFIB2018F.h5 https://flyem.mrc-lmb.cam.ac.uk/flyconnectome/misc/JRC2018F_JRCFIB2018F.h5 | |
| curl -o $HOME/flybrain-data/JRC2018F_FAFB.h5 https://flyem.mrc-lmb.cam.ac.uk/flyconnectome/misc/JRC2018F_FAFB.h5 | |
| - name: Run tutorials | |
| uses: coactions/setup-xvfb@v1 | |
| env: | |
| NEUPRINT_APPLICATION_CREDENTIALS: ${{ secrets.neuprint }} | |
| INSECT_BRAIN_DB_USER: ${{ secrets.insect_brain_db_user }} | |
| INSECT_BRAIN_DB_PASSWORD: ${{ secrets.insect_brain_db_password }} | |
| CAVE_SECRET: ${{ secrets.cave_secret }} | |
| NAVIS_PLOT3D_BACKEND: plotly | |
| QT_QPA_PLATFORM: offscreen | |
| with: | |
| run: | | |
| python -c "import os;from caveclient import CAVEclient;client=CAVEclient();client.auth.save_token(os.getenv('CAVE_SECRET'))" | |
| python tests/test_tutorials.py |