memote.yml

name: SYN memote tracking

on:
  push:
    branches: [ "main", "add_missing_rxns"]
jobs:
  memote-history:
    runs-on: ubuntu-latest
    steps:

    - name: Checkout model
      uses: actions/checkout@v2
      with:
        fetch-depth: 0

    - name: Checkout concerto
      uses: actions/checkout@v2
      with:
        repository: PNNL-CompBio/CONCERTO
        path: 'concerto_path'

    - name: Set up Python 3
      uses: actions/setup-python@v2
      with:
        python-version: '3.10.6'

    - name: Install memote
      run: pip install memote cobra

    - name: Setup variables
      id: setup
      run: |
        echo "snapshot=snapshot_report.html" >> $GITHUB_ENV
        echo "history=history_report.html" >> $GITHUB_ENV
        echo "deployment=gh-pages" >> $GITHUB_ENV
        echo "custom_tests=syn_elong/custom_tests" >> $GITHUB_ENV
        echo "MEMOTE_LOCATION=results" >> $GITHUB_ENV
        echo "PYTHONPATH=$PYTHONPATH:concerto_path" >> $GITHUB_ENV
        ls
        pwd


    - name: Memote short run
      run: |
        git config --global user.email "${GITHUB_ACTOR}@users.noreply.github.com"
        git config --global user.name "${GITHUB_ACTOR}"
        git checkout gh-pages
        git checkout ${{ github.ref_name }}
        memote run --custom-tests=${{ env.custom_tests }}
      env:
        GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

    - name: Compute Memote history on push
      run: |
        git checkout gh-pages
        # Generate the history report on the deployment branch
        memote report history --filename="${{ env.history }}"

    - name: Memote run
      run: |
        git checkout ${{ github.ref_name }}
        memote report snapshot \
        --filename="${{ env.snapshot }}" \
        --custom-tests=${{ env.custom_tests }}

    - name: Auto-commit results
      uses: stefanzweifel/git-auto-commit-action@v4.4.0
      with:
        commit_user_name: memote-bot
        commit_message: "chore: update memote history report"
        file_pattern: "*_report.html"
        branch: gh-pages
        repository: .
      env:
        GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}