build.yml

name: Build slims
on:
  workflow_dispatch:
  pull_request:
    paths:
     - './config/*'
  push:
    paths:
     - 'config.yaml'
     - '.github/workflows/build.yml'
     - './config/*'
  schedule:
    - cron: 1 0 1 1-12 *
jobs:
  build:
    runs-on: ubuntu-latest
    steps:
    - name: Check out repository
      uses: actions/checkout@v3
      with:
       token: ${{ secrets.PAT }} 
    # Get slimmer and robot
    - name: add slimmer and robot URLs to environment
      run: |
        echo $(java --version)
        config_file="config.yaml"
        robot_jar=""
        robot=""
        slimmer=""

        while IFS=":" read -r key value; do
          key=$(echo "$key" | tr -d '[:space:]')

          case "$key" in
            robot-jar)
              robot_jar=$(echo "$value" | tr -d '[:space:]')
              ;;
            robot-wrapper)
              robot=$(echo "$value" | tr -d '[:space:]')
              ;;
            slimmer)
              slimmer=$(echo "$value" | tr -d '[:space:]')
              ;;
          esac
        done < "$config_file"
        echo SLIMMER: $slimmer
        echo ROBOT JAR: $robot_jar
        echo ROBOT WRAPPER: $robot
        echo 'slimmer='${slimmer}'' >> $GITHUB_ENV
        echo 'robot='${robot}'' >> $GITHUB_ENV
        echo 'robot_jar='${robot_jar}'' >> $GITHUB_ENV
    - name: get slimmer
      run: wget ${{ env.slimmer }}
    - name: get robot
      run: |
        cd ./scripts/src/build-workflow
        wget ${{ env.robot }}
        wget ${{ env.robot_jar}}
  
  # slim all ontologies
  # Authorize running slim script
    - name: authorize running slim scripts
      run: chmod 755 scripts/src/build-workflow/*.sh
  
  # Slim aopo
    - name: slim-aopo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh aopo
  
  # Slim bao
    - name: slim-bao
      if: always()
      run: bash scripts/src/build-workflow/slim.sh bao
  
  # Slim bfo
    - name: slim-bfo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh bfo
  
  # Slim bto
    - name: slim-bto
      if: always()
      run: bash scripts/src/build-workflow/slim.sh bto
  
  # Slim ccont
    - name: slim-ccont
      if: always()
      run: bash scripts/src/build-workflow/slim.sh ccont
  
  # Slim cheminf
    - name: slim-cheminf
      if: always()
      run: bash scripts/src/build-workflow/slim.sh cheminf
    
  # Slim chebi
    - name: slim-chebi
      if: always()
      run: bash scripts/src/build-workflow/slim.sh chebi
  
  # Slim chmo
    - name: slim-chmo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh chmo
  
  # Slim clo
    - name: slim-clo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh clo
  
  # Slim efo
    - name: slim-efo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh efo
  
  # Slim envo
    - name: slim-envo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh envo
  
  # Slim fabio
    - name: slim-fabio
      if: always()
      run: bash scripts/src/build-workflow/slim.sh fabio
  
  # Slim go
    - name: slim-go
      if: always()
      run: bash scripts/src/build-workflow/slim.sh go
  
  # Slim iao
    - name: slim-iao
      if: always()
      run: bash scripts/src/build-workflow/slim.sh iao
  
  # Slim ncit
    - name: slim-ncit
      if: always()
      run: bash scripts/src/build-workflow/slim.sh ncit
  
  # Slim npo
    - name: slim-npo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh npo
  
  # Slim oae
    - name: slim-oae
      if: always()
      run: bash scripts/src/build-workflow/slim.sh oae
  
  # Slim obcs
    - name: slim-obcs
      if: always()
      run: bash scripts/src/build-workflow/slim.sh obcs
  
  # Slim obi
    - name: slim-obi
      if: always()
      run: bash scripts/src/build-workflow/slim.sh obi
  
  # Slim pato
    - name: slim-pato
      if: always()
      run: bash scripts/src/build-workflow/slim.sh pato
  
  # Slim sio
    - name: slim-sio
      if: always()
      run: bash scripts/src/build-workflow/slim.sh sio
  
  # Slim uberon
    - name: slim-uberon
      if: always()
      run: bash scripts/src/build-workflow/slim.sh uberon
  
  # Slim uo
    - name: slim-uo
      if: always()
      run: bash scripts/src/build-workflow/slim.sh uo

  # Slim msio
    - name: slim-msio
      if: always()
      run: bash scripts/src/build-workflow/slim.sh msio

  # apply props bao
    - name: Apply props bao
      if: always()
      run: bash scripts/src/build-workflow/props.sh bao
  
  # apply props npo
    - name: Apply props npo
      if: always()
      run: bash scripts/src/build-workflow/props.sh npo
  
  # apply props sio
    - name: Apply props sio
      if: always()
      run: bash scripts/src/build-workflow/props.sh sio
  
    - name: Apply props cheminf
      if: always()
      run: bash scripts/src/build-workflow/props.sh cheminf

    - name: Apply props ro
      if: always()
      run: bash scripts/src/build-workflow/props.sh ro

  # Commit and push
    - name: Commit OWL files
      if: always()
      run: |
        git fetch
        echo "::set-output name=has_changes::$(git diff --name-only origin/main)"
        
        git config --local user.email "action@github.com"
        git config --local user.name "GitHub Action"
        git add external-dev/*.owl
        git commit -m "Actions - slim updated" ./external-dev/*.owl
        git push -f
    - name: Create issue about failure
      if: failure()
      uses: JasonEtco/create-an-issue@v2.5.0
      env:
        GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
      with:
        filename: .github/action-issue-template.md