mysql.yml

name: mysql demo db build
on:
  pull_request_review:
    types: [submitted]

jobs:
  mimic-iv-mysql:
    # only run if PR is approved
    if: github.event.review.state == 'approved'
    runs-on: ubuntu-22.04

    steps:
      - name: Check out repository code
        uses: actions/checkout@v3

      - name: Download demo data
        uses: ./.github/actions/download-demo
        with:
            gcp-project-id: ${{ secrets.GCP_PROJECT_ID }}
            gcp-sa-key: ${{ secrets.GCP_SA_KEY }}

      - name: Extract demo data to local folder
        run: |
          mv demo/hosp/*.csv.gz ./
          mv demo/icu/*.csv.gz ./
          mv demo/ed/*.csv.gz ./
          gzip -d *.csv.gz

      - name: Start MySQL service
        run: |
          sudo /etc/init.d/mysql start
          mysql -u root -proot -e "SET GLOBAL local_infile=1;"
          mysql -u root -proot -e "SET GLOBAL sql_notes=0;"
          mysql -u root -proot -e "create database mimic"

      - name: Load icu/hosp demo data
        run: |
          echo "Loading data into mysql."
          mysql -u root -proot --local-infile=1 mimic < mimic-iv/buildmimic/mysql/load.sql
          mysql -u root -proot mimic < mimic-iv/buildmimic/mysql/validate_demo.sql > results
          
          # if we find "FAILED", then we did not pass the build
          if grep -F -q "FAILED" results; then
            echo "Failed the following row counts:"
            head -n 1 results
            grep "FAILED" results
            exit 1
          else
            echo "Built and loaded demo data successfully."
            cat results
          fi

      - name: Load ed demo data
        run: |
          echo "Loading data into mysql."
          mysql -u root -proot --local-infile=1 mimic < mimic-iv-ed/buildmimic/mysql/load.sql
          mysql -u root -proot mimic < mimic-iv-ed/buildmimic/mysql/validate_demo.sql > results
          
          # if we find "FAILED", then we did not pass the build
          if grep -F -q "FAILED" results; then
            echo "Failed the following row counts:"
            head -n 1 results
            grep "FAILED" results
            exit 1
          else
            echo "Built and loaded demo data successfully."
            cat results
          fi