deploy.yml

name: Build the IG
on:
  pull_request:
    types: [closed]
jobs:
  deploy:
    if: github.event.pull_request.merged == true
    runs-on: ubuntu-latest
    strategy:
      fail-fast: false
    steps:
      - uses: actions/checkout@v3
      
      - uses: actions/setup-java@v3
        with:
          distribution: "temurin"
          java-version: "17"
      - uses: actions/checkout@v4
      - uses: actions/setup-python@v5
        with:
          python-version: '3.10' 
    # Install ruby
    # https://github.com/ruby/setup-ruby
      - uses: ruby/setup-ruby@v1
        with:
          ruby-version: "3.2"

    # Install Jekyll
    # https://jekyllrb.com/docs/installation/ubuntu/
      - name: "Install Jekyll"
        shell: bash
        run: |
          gem install jekyll bundler
          jekyll -v

    # Install node if SUSHI is needed
    # https://github.com/actions/setup-node
      - name: "Install Node.js"
        uses: actions/setup-node@v3
        with:
          node-version: "18"

    # Install SUSHI if needed
      - name: "Install SUSHI"
        shell: bash
        run: |
          npm install -g fsh-sushi@2.7.0
          sushi --version
          sushi .


    # Install GOFSH if needed
      - name: "Install GOFSH"
        shell: bash
        run: |
          npm install -g gofsh@1.6.4
          gofsh --version

    # Install reproschema2fhir if needed
      - name: Checkout
        uses: actions/checkout@v4
        with:
          repository: kind-lab/reproschema-to-fhir
          submodules: 'true'
          path: './tofsh'
          ssh-key: ${{ secrets.SSH_DEPLOY_KEY }}
    
    # Call Gofsh if needed
      - name: Checkout
        shell: bash
        run: |
          cd ./tofsh
          pip install -e .
          touch .env
          git submodule update --init --recursive
          echo -e "CODESYSTEM_URI = https://voicecollab.ai/fhir/CodeSystem/" >> .env
          echo -e "VALUESET_URI = https://voicecollab.ai/fhir/ValueSet/" >> .env
          echo -e "QUESTIONNAIRE_URI = https://voicecollab.ai/fhir/Questionnaire/" >> .env
          echo -e "QUESTIONNAIRE_LANGUAGE = en" >> .env
          echo -e "FHIR_QUESTIONNAIRE_MODE = AnswerOptions" >> .env
          ./job.sh
          cd ..
          cp -r ./tofsh/output/ fsh_files
          gofsh fsh_files
          rm -r ./input/fsh/instances
          cp -r gofsh/input/fsh/instances ./input/fsh
          sushi .

    # commit to current repo
      - name: "Overwrite fsh files"
        run: |
          git rev-parse --abbrev-ref HEAD
          git config --global user.email "github-actions[bot]@users.noreply.github.com"
          git config --global user.name "github-actions[bot]"
          git config --global credential.helper cache
          git clone --depth 1 https://${{ secrets.GH_VBAI_PAT }}@github.com/kind-lab/voice-biomarker-fhir tmp_branch
          rm -r tmp_branch/input/fsh
          cp -r ./input/fsh tmp_branch/input/
          cd tmp_branch
          git add ./input/fsh
          git commit -a -m "$(date): update redcap2fhir resources"
          git push
          cd ..



      - name: "Download the IG Publisher"
        shell: bash
        run: |
          mkdir ./input-cache
          curl -sS -L https://github.com/HL7/fhir-ig-publisher/releases/latest/download/publisher.jar -o ./input-cache/publisher.jar
          chmod +x ./input-cache/publisher.jar
      
      - name: "Create IG"
        shell: bash
        run: |
          java -jar -Xms4096M -Xmx6144M -XX:NewRatio=1 -XX:-UseAdaptiveSizePolicy input-cache/publisher.jar ig.ini
          mkdir -p ./git-output/vbai-fhir
          cp -r ./output/* ./git-output/vbai-fhir 
      
      - name: "Deploy to kind-lab.github.io"
        run: |
          git config --global user.email "github-actions[bot]@users.noreply.github.com"
          git config --global user.name "github-actions[bot]"
          git config --global credential.helper cache
          git clone --depth 1 https://${{ secrets.GH_VBAI_PAT }}@github.com/kind-lab/kind-lab.github.io website
          mkdir -p website/vbai-fhir
          cp -r ./git-output/vbai-fhir website
          cd website
          git add vbai-fhir
          git commit -a -m "$(date): update vbai-fhir"
          git push