node.yml

name: Build, test, and deploy backend to staging
on:
  push:
    branches:
      - develop
    paths:
      - .github/workflows/node.yml
      - server/**
      - test-node/**
  pull_request:
    branches:
      - develop
    paths:
      - .github/workflows/node.yml
      - server/**
      - test-node/**
  workflow_dispatch:
    inputs:
      logLevel:
        description: "Log level"
        required: true
        default: "warning"
        type: choice
        options:
          - info
          - warning
          - debug

jobs:
  build-server:
    runs-on: ubuntu-latest
    defaults:
      run:
        working-directory: server
    steps:
      - uses: actions/checkout@v3
      - uses: docker/setup-buildx-action@v1
        with:
          buildkitd-flags: --debug
      - uses: actions/cache@v3
        with:
          path: /tmp/.buildx-cache
          key: ${{ runner.os }}-buildx-${{ github.sha }}
          restore-keys: |
            ${{ runner.os }}-buildx-
      - uses: actions/setup-node@v3
        with:
          node-version: 16
          cache: yarn
          cache-dependency-path: server/yarn.lock
      - if: github.event_name == 'pull_request'
        run: yarn
      - if: github.event_name == 'pull_request'
        run: yarn lint
      - if: github.event_name == 'pull_request'
        run: yarn check-format
      - if: github.event_name == 'pull_request'
        run: yarn test
      - uses: docker/login-action@v1
        if: github.event_name == 'push'
        with:
          registry: ghcr.io
          username: ${{ github.actor }}
          password: ${{ github.token }}
      - name: Build and push staging image
        if: github.event_name == 'push'
        uses: docker/build-push-action@v2
        with:
          context: server
          push: true
          tags: ghcr.io/ccmbioinfo/osmp:latest
          cache-from: type=local,src=/tmp/.buildx-cache
          cache-to: type=local,dest=/tmp/.buildx-cache,mode=max
  build-test-node:
    runs-on: ubuntu-latest
    defaults:
      run:
        working-directory: test-node
    steps:
      - uses: actions/checkout@v3
      - uses: docker/setup-buildx-action@v1
        with:
          buildkitd-flags: --debug
      - uses: actions/cache@v3
        with:
          path: /tmp/.buildx-cache
          key: ${{ runner.os }}-buildx-${{ github.sha }}
          restore-keys: |
            ${{ runner.os }}-buildx-
      - uses: actions/setup-node@v3
        with:
          node-version: 16
          cache: yarn
          cache-dependency-path: test-node/yarn.lock
      - if: github.event_name == 'pull_request'
        run: yarn
      - if: github.event_name == 'pull_request'
        continue-on-error: true
        run: yarn lint
      - if: github.event_name == 'pull_request'
        run: yarn check-format
      - uses: docker/login-action@v1
        if: github.event_name == 'push'
        with:
          registry: ghcr.io
          username: ${{ github.actor }}
          password: ${{ github.token }}
      - name: Build and push staging image
        if: github.event_name == 'push'
        uses: docker/build-push-action@v2
        with:
          context: test-node
          push: true
          tags: ghcr.io/ccmbioinfo/osmp-test-node
          cache-from: type=local,src=/tmp/.buildx-cache
          cache-to: type=local,dest=/tmp/.buildx-cache,mode=max
  deploy:
    runs-on: [cheo-ri]
    needs:
      - build-server
      - build-test-node
    if: github.ref == 'refs/heads/develop'
    environment: SSMP_SERVER_DEV
    concurrency: SSMP_SERVER_DEV
    steps:
      - uses: actions/checkout@v3
      - uses: docker/login-action@v1
        with:
          registry: ghcr.io
          username: ${{ github.actor }}
          password: ${{ github.token }}
      - name: Configure SSH
        id: configure
        # The self-hosted runner is not ephemeral, so we load the secret key into
        # an agent instead in memory. Keep track of it for further workflow steps
        # and so we can clean it up and not leave orphaned processes hanging around.
        #
        # https://docs.docker.com/engine/context/working-with-contexts/
        # This avoids passing an -H parameter to every Docker CLI call.
        run: |
          SSH_AGENT_EVAL=$(ssh-agent -s)
          eval "$SSH_AGENT_EVAL"
          ssh-add - <<< "${{ secrets.DEPLOY_PRIVATE_KEY }}"
          echo "::set-output name=ssh-agent-eval::$SSH_AGENT_EVAL"
          echo "::set-output name=ssh-agent-pid::$SSH_AGENT_PID"
          mkdir -p ~/.ssh
          echo "${{ secrets.DEPLOY_HOST_KEY }}" > ~/.ssh/known_hosts
          chmod -R g-rwx,o-rwx ~/.ssh
          docker context create deploy-target --docker host=ssh://${{ secrets.DEPLOY_SSH_HOST }}
          docker context use deploy-target
      - name: Deploy
        # Even though this is deploying to a remote Docker Engine,
        # Compose uses the registry credentials of the client
        env:
          COMPOSE_FILE: docker-compose.staging.yaml
          PROJECT_ROOT: /home/ubuntu/osmp
          # Server
          G4RD_AUTH_METHOD: ${{ secrets.G4RD_AUTH_METHOD }}
          G4RD_PASSWORD: ${{ secrets.G4RD_PASSWORD }}
          G4RD_URL: ${{ secrets.G4RD_URL }}
          G4RD_USERNAME: ${{ secrets.G4RD_USERNAME }}
          G4RD_REALM: ${{ secrets.G4RD_REALM }}
          G4RD_GRANT_TYPE: ${{ secrets.G4RD_GRANT_TYPE }}
          G4RD_TOKEN_URL: ${{ secrets.G4RD_TOKEN_URL }}
          G4RD_CLIENT_ID: ${{ secrets.G4RD_CLIENT_ID }}
          CMH_AZURE_CLIENT_ID: ${{ secrets.CMH_AZURE_CLIENT_ID }}
          CMH_AZURE_CLIENT_SECRET: ${{ secrets.CMH_AZURE_CLIENT_SECRET }}
          CMH_TOKEN_URL: ${{ secrets.CMH_TOKEN_URL }}
          CMH_RESOURCE: ${{ secrets.CMH_RESOURCE }}
          CMH_SCOPE: ${{ secrets.CMH_SCOPE }}
          CMH_GRANT_TYPE: ${{ secrets.CMH_GRANT_TYPE }}
          CMH_GENE42_SECRET: ${{ secrets.CMH_GENE42_SECRET }}
          CMH_URL: ${{ secrets.CMH_URL }}
          KEYCLOAK_AUTH_URL: ${{ secrets.KEYCLOAK_AUTH_URL }}
          KEYCLOAK_REALM: ${{ secrets.KEYCLOAK_REALM }}
          KEYCLOAK_CLIENT_ID: ${{ secrets.KEYCLOAK_CLIENT_ID }}
          SERVER_SESSION_SECRET: ${{ secrets.SERVER_SESSION_SECRET }}
          # Test Node
          TEST_DATA_DB: ${{ secrets.TEST_DATA_DB }}
          TEST_DATA_DB_USER: ${{ secrets.TEST_DATA_DB_USER }}
          TEST_DATA_DB_PASSWORD: ${{ secrets.TEST_DATA_DB_PASSWORD }}
          # Test Node MySQL
          TEST_DATA_DB_ROOT_PASSWORD: ${{ secrets.TEST_DATA_DB_ROOT_PASSWORD }}
          # Keycloak
          KEYCLOAK_DB_ADDR: ${{ secrets.KEYCLOAK_DB_ADDR }}
          KEYCLOAK_DB: ${{ secrets.KEYCLOAK_DB }}
          KEYCLOAK_DB_USER: ${{ secrets.KEYCLOAK_DB_USER }}
          KEYCLOAK_DB_PASSWORD: ${{ secrets.KEYCLOAK_DB_PASSWORD }}
          # Mongo
          MONGO_CONNECTION_STRING: ${{ secrets.MONGO_CONNECTION_STRING }}
        run: |
          eval "${{ steps.configure.outputs.ssh-agent-eval }}"
          docker-compose pull
          docker-compose up -d --remove-orphans
      - name: Clean up
        if: always()
        run: |
          docker context rm -f deploy-target
          eval "${{ steps.configure.outputs.ssh-agent-eval }}"
          SSH_AGENT_PID="${{ steps.configure.outputs.ssh-agent-pid }}" ssh-agent -k