run-tutorials.yml

name: Run Tutorials

on:
  push:
    branches: [main]
  pull_request:
    branches: [main]
  workflow_dispatch:

jobs:
  run-tutorials:
    runs-on: ubuntu-latest
    timeout-minutes: 30

    steps:
      - name: Checkout tutorials repo
        uses: actions/checkout@v4

      - name: Clone MEmilio repository
        run: git clone --depth 1 https://github.com/SciCompMod/memilio.git memilio

      - name: Install uv
        uses: astral-sh/setup-uv@v4

      - name: Set up Python
        run: uv python install 3.12

      - name: Install system dependencies
        run: |
          sudo apt-get update
          sudo apt-get install -y cmake ninja-build

      - name: Install memilio-simulation and Python packages
        run: |
          uv init
          # Install memilio-simulation from the cloned repo (C++ extension, needs cmake/ninja)
          uv add --dev ./memilio/pycode/memilio-simulation
          # Install tutorial dependencies
          uv add marimo matplotlib pandas numpy pyabc[pyarrow] bayesflow tensorflow nbformat

      - name: Run tutorials and export to HTML
        run: |
          mkdir -p html_output
          failed=""
          for notebook in tutorial*.py; do
            name=$(basename "${notebook%.py}")
            echo "::group::Running $notebook"
            if uv run marimo export html "$notebook" -o "html_output/${name}.html"; then
              echo "OK: $notebook"
            else
              echo "::error::FAILED: $notebook"
              failed="$failed $notebook"
            fi
            echo "::endgroup::"
          done
          if [ -n "$failed" ]; then
            echo "The following notebooks failed:$failed"
            exit 1
          fi

      - name: Upload HTML artifacts
        if: success()
        uses: actions/upload-artifact@v4
        with:
          name: tutorial-html
          path: html_output/
          retention-days: 30