Add interactive region annotation tutorial #19
Workflow file for this run
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| name: Execute notebooks | |
| on: | |
| schedule: | |
| # Weekly: Mondays 04:00 UTC; re-executes ALL notebooks against latest releases. | |
| - cron: "0 4 * * 1" | |
| pull_request: | |
| branches: [main] | |
| paths: | |
| - "**/*.ipynb" | |
| - "pyproject.toml" | |
| - ".github/workflows/execute.yaml" | |
| workflow_dispatch: | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| execute: | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 60 | |
| steps: | |
| - uses: actions/checkout@v5 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.13" | |
| cache: pip | |
| cache-dependency-path: pyproject.toml | |
| - name: Cache pooch datasets | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/.cache/pooch | |
| # Datasets are pinned by URL inside notebook code, not by the | |
| # notebook's surrounding markdown — bump the v* suffix when an | |
| # actually-new dataset URL lands. | |
| key: pooch-${{ runner.os }}-v1 | |
| restore-keys: | | |
| pooch-${{ runner.os }}- | |
| - name: Install execution environment | |
| run: | | |
| pip install --upgrade pip | |
| pip install -e ".[exec]" | |
| - name: Detect changed notebooks (PR only) | |
| if: github.event_name == 'pull_request' | |
| id: changed | |
| uses: tj-actions/changed-files@v45 | |
| with: | |
| files: | | |
| tutorials/**/*.ipynb | |
| examples/**/*.ipynb | |
| - name: Determine notebooks to execute | |
| id: pick | |
| run: | | |
| if [ "${{ github.event_name }}" = "pull_request" ]; then | |
| nbs="${{ steps.changed.outputs.all_changed_files }}" | |
| # tj-actions emits space-separated; one-per-line for the loop below. | |
| nbs=$(printf '%s\n' $nbs) | |
| else | |
| nbs=$(find tutorials examples -name "*.ipynb" -not -path "*/.ipynb_checkpoints/*" 2>/dev/null || true) | |
| fi | |
| if [ -z "$nbs" ]; then | |
| echo "No notebooks to execute." | |
| else | |
| echo "Will execute:" | |
| echo "$nbs" | |
| fi | |
| { | |
| echo 'files<<EOF' | |
| echo "$nbs" | |
| echo 'EOF' | |
| } >> "$GITHUB_OUTPUT" | |
| - name: Re-execute selected notebooks | |
| if: steps.pick.outputs.files != '' | |
| run: | | |
| # Pin kernel_name to python3 so notebooks committed with a | |
| # contributor-local kernel name (e.g. from a pixi `kernel-install` | |
| # task) still execute against CI's stock python3 kernel. | |
| while IFS= read -r nb; do | |
| [ -z "$nb" ] && continue | |
| echo "Executing $nb" | |
| jupyter nbconvert --to notebook --execute --inplace \ | |
| --ExecutePreprocessor.kernel_name=python3 "$nb" | |
| done <<< "${{ steps.pick.outputs.files }}" |