ci-tests-jupyter.yml

name: CI Tests (Jupyter)

on:
  push:
    paths-ignore:
      - 'paper/**'
      - '.gitattributes'
      - '.gitmodules'
      - 'CITATION.cff'
      - 'LICENSE'
      - 'README.md'
  pull_request:
    paths-ignore:
      - 'paper/**'
      - '.gitattributes'
      - '.gitmodules'
      - 'CITATION.cff'
      - 'LICENSE'
      - 'README.md'
  workflow_dispatch:
    inputs:
      debug_enabled:
        description: 'Pause before tests for tmate debugging'
        required: false
        default: 'false'

defaults:
  run:
    shell: bash -leo pipefail {0}

jobs:
  run-tests:
    name: "Run Jupyter CI tests (Python ${{ matrix.python-version }}, IPython ${{ matrix.ipython-version }})"
    runs-on: ubuntu-latest
    # only run on pull requests between forks to avoid duplicate runs with 'push' event
    if: github.event_name == 'push' || github.event.pull_request.head.repo.full_name != github.repository
    strategy:
      fail-fast: false
      matrix:
        include:
          # for each Python version, test with earliest and latest supported IPython version
          - python-version: 3.6
            ipython-version: 5.5.0    # earliest version supported by davos
          - python-version: 3.6
            ipython-version: 7.16     # latest version to support Python 3.6
          - python-version: 3.7
            ipython-version: 5.5.0    # earliest version supported by davos
          - python-version: 3.7
            ipython-version: 7.31     # latest version to support Python 3.7
          - python-version: 3.8
            ipython-version: 7.3.0    # earliest version to support Python 3.8
          - python-version: 3.8
            ipython-version: 8.12.2   # latest version to support Python 3.8
          - python-version: 3.9
            ipython-version: 7.15     # earliest version to support Python 3.9
          - python-version: 3.9
            ipython-version: latest
          - python-version: '3.10'
            ipython-version: 8.0      # earliest version to support Python 3.10
          - python-version: '3.10'
            ipython-version: latest
          - python-version: 3.11
            ipython-version: 8.8.0    # earliest version to support Python 3.11
          - python-version: 3.11
            ipython-version: latest
    env:
      HEAD_FORK: ${{ github.repository_owner }}
      HEAD_SHA: ${{ github.event_name == 'pull_request' && github.event.pull_request.head.sha || github.sha }}
      IPYTHON_VERSION: ${{ matrix.ipython-version }}
#      MAMBA_NO_BANNER: 1
      NOTEBOOK_TYPE: jupyter
      PYTHON_VERSION: ${{ matrix.python-version }}
    steps:
      - uses: actions/checkout@v2
        with:
          ref: ${{ env.HEAD_SHA }}

      - name: install miniconda
        uses: conda-incubator/setup-miniconda@v2
        with:
          auto-update-conda: true
#          miniforge-variant: Mambaforge
#          miniforge-version: 4.13.0-1
#          use-mamba: true
#          channels: conda-forge,defaults
#          channel-priority: strict
          auto-activate-base: true
          activate-environment: ""

      - name: setup base environment
        run: |
          # install Python 3.9 (used to run notebooks via selenium, not the tests themselves)
          conda install python=3.9
          
          # install Firefox browser:
          # - remove pre-installed snap package
          [[ -x "$(command -v snap)" ]] && sudo snap remove firefox
          
          # - add Mozilla PPA as a repository
          sudo add-apt-repository -y ppa:mozillateam/ppa
          
          # - alter Firefox package priority to prefer the deb package from the PPA
          echo '
          Package: *
          Pin: release o=LP-PPA-mozillateam
          Pin-Priority: 1001
          ' | sudo tee /etc/apt/preferences.d/mozilla-firefox
          
          # - install the proper version
          sudo apt install -y --allow-downgrades firefox

          # install python packages
          pip install notebook \
              pytest==6.2 \
              selenium==3.141 \
              geckodriver-autoinstaller \
              ipykernel==5.0.0 \
              "jupyter_client<=7.3.2" \
              "tornado<=6.1" \
              "urllib3<2.0"

          # install geckodriver
          driver_path=$(python -c '

          from pathlib import Path

          import geckodriver_autoinstaller

          driver_src = Path(geckodriver_autoinstaller.install(cwd=True))
          driver_dest = driver_src.rename(driver_src.parents[1].joinpath(driver_src.name))
          driver_src.parent.rmdir()
          print(driver_dest)

          ')

          # export path to driver as environment variable
          echo "DRIVER_PATH=$driver_path" >> $GITHUB_ENV

      - name: setup notebook kernel environment
        run: |
          # create & activate kernel environment
          conda create -n kernel-env python=$PYTHON_VERSION
          conda activate kernel-env

          # install davos & various test requirements in kernel environment
          [[ "$PYTHON_VERSION" =~ ^3.(6|7)$ ]] && pip install typing-extensions
          pip install "ipykernel==5.0.0" \
              ipython-genutils \
              requests \
              fastdtw==0.3.4 \
              tqdm==4.41.1 \
              "numpy<=1.23.5"
          [[ "$PYTHON_VERSION" =~ ^3.11$ ]] && pip install scipy==1.11.1 || pip install "scipy<=1.7.3"
          if [[ "$IPYTHON_VERSION" == "latest" ]]; then
              pip install --upgrade IPython
          else
              pip install IPython==$IPYTHON_VERSION
          fi
          pip install .

          # make environment available as a jupyter kernel
          python -m ipykernel install --prefix=/usr/share/miniconda --name=kernel-env
          conda deactivate

      - name: record environment
        run: |
          {
            # get packages in base environment
            printf '=%.0s' {1..20}; printf ' base '; printf '=%.0s' {1..20}; printf '\n'
            conda env export -n base
          
            # get packages in kernel environment
            printf '=%.0s' {1..20}; printf ' kernel-env '; printf '=%.0s' {1..20}; printf '\n'
            conda env export -n kernel-env
          
            # get firefox browser & webdriver version
            printf '=%.0s' {1..20}; printf ' firefox '; printf '=%.0s' {1..20}; printf '\n'
            firefox --full-version
            $DRIVER_PATH --version
          
            # get jupyter kernels available in base environment
            printf '=%.0s' {1..20}; printf ' jupyter kernels '; printf '=%.0s' {1..20}; printf '\n'
            jupyter kernelspec list
          } > ${{ github.workspace }}/environment-info.txt
          
          cat ${{ github.workspace }}/environment-info.txt

      - name: launch Jupyter server
        run: jupyter notebook --no-browser --port=8888 --NotebookApp.token= &

      - name: debug runner
        if: |
          github.event_name == 'workflow_dispatch'
          && github.event.inputs.debug_enabled == 'true'
        uses: mxschmitt/action-tmate@v3

      - name: run pytest
        id: run-pytest
        run: pytest -sv tests/

      - name: upload artifacts on failure
        uses: actions/upload-artifact@v3
        if: failure()
        with:
          name: artifacts-python${{ matrix.python-version }}-ipython${{ matrix.ipython-version }}
          path: |
            ${{ github.workspace }}/tests/*.ipynb
            ${{ github.workspace }}/environment-info.txt