Fix compile warning in from_raw_data_to_tractogram #2
Workflow file for this run
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| name: Tutorials | ||
|
Check failure on line 1 in .github/workflows/tutorials.yml
|
||
| on: | ||
| push: | ||
| branches: | ||
| - master | ||
| pull_request: | ||
| branches: | ||
| - master | ||
| merge_group: | ||
| concurrency: | ||
| group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }} | ||
| cancel-in-progress: true | ||
| jobs: | ||
| run-tutorials: | ||
| runs-on: scilus-large | ||
| if: github.repository == 'scilus/scilpy' | ||
| steps: | ||
| - name: Checkout repository at merge | ||
| - uses: actions/checkout@v4 | ||
| - name: Fetch python version from repository | ||
| id: python-selector | ||
| run: echo "python-version=$(head -1 .python-version)" >> $GITHUB_OUTPUT | ||
| - name: Set up Python and uv for Scilpy | ||
| uses: astral-sh/setup-uv@v6.4.3 | ||
| with: | ||
| python-version: ${{ steps.python-selector.outputs.python-version }} | ||
| activate-environment: true | ||
| enable-cache: true | ||
| - name: Install non-python dependencies | ||
| run: | | ||
| sudo apt-get update | ||
| sudo apt-get install -y \ | ||
| build-essential \ | ||
| curl \ | ||
| git \ | ||
| libblas-dev \ | ||
| liblapack-dev \ | ||
| libfreetype6-dev \ | ||
| libdrm-dev \ | ||
| libgl1-mesa-dev \ | ||
| libosmesa6-dev | ||
| - name: stdlib checkout | ||
| if: ${{ !contains(steps.python-selector.outputs.python-version, '3.12') }} | ||
| run: | | ||
| echo "SETUPTOOLS_USE_DISTUTILS=stdlib" >> "$GITHUB_ENV" | ||
| - name: Install Scilpy | ||
| run: | | ||
| uv pip install --upgrade pip wheel | ||
| uv pip install --upgrade "setuptools<71.0.0" | ||
| uv pip install -e . | ||
| # TODO: to adapt once Scilpy passes to VTK 9.4.0, which selects OSMesa at runtime | ||
| # https://discourse.vtk.org/t/status-update-runtime-opengl-render-window-selection-in-vtk/14583 | ||
| VTK_VERSION=$(cat pyproject.toml | grep 'vtk==' | sed 's/vtk==//g' | sed 's/\"//g' ) | ||
| uv pip install --extra-index-url https://wheels.vtk.org vtk-osmesa==$VTK_VERSION | ||
| uv pip install pytest-xdist pytest-cov | ||
| - name: Run tutorial scripts | ||
| run: | | ||
| chmod +x docs/source/documentation/*/*.sh | ||
| # All our script use the tutorial data | ||
| wget -O WB-common.zip https://scil.usherbrooke.ca/scil_test_data/dvc-store/files/md5/21/0b52975dc2b84d94426166e74245a3 | ||
| unzip WB-common.zip | ||
| rm WB-common.zip | ||
| here=`pwd` | ||
| input_path=$here/WB-common | ||
| for script in docs/source/documentation/*/*.sh; | ||
| do | ||
| echo "Running $script..." | ||
| # Create a temporary output path | ||
| tmpdir=$(mktemp -d) | ||
| cd "$tmpdir" | ||
| output_path=$tmpdir | ||
| # We make sure that all our scripts receive as input the path to WB-common | ||
| # as the path to the (temporary) output data. | ||
| bash "$script" $input_path $output_path | ||
| done | ||
