build_dockerfile_pangolin_master.yml

name: Build and publish pangolin docker image for master

on:
  schedule:
    - cron: "0 0 * * *"
  push:
    branches:
      - master

jobs:
  get-version:
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@v2
      - name: Get current date
        id: date
        run: echo "::set-output name=date::$(date +'%Y-%m-%d')"
      - name: Test with environment variables
        run: echo $RELEASE_DATE
        env:
          RELEASE_DATE: ${{ steps.date.outputs.date }}
      - name: Fetch pangolin version
        shell: bash
        run: |
          ##Get pangolin-data version
          curl -sL https://api.github.com/repos/cov-lineages/pangolin-data/releases/latest | \
          jq -r ".tag_name" > versions/pangolin-data-latest-version.txt
          pangolin_data_VER=$(cat versions/pangolin-data-latest-version.txt)
          echo $pangolin_data_VER

          ##Get constellations version
          curl -sL https://api.github.com/repos/cov-lineages/constellations/releases/latest | \
          jq -r ".tag_name" > versions/constellations-latest-version.txt
          constellations_VER=$(cat versions/constellations-latest-version.txt)
          echo $constellations_VER

          ##Get pangolin version
          curl -sL https://api.github.com/repos/cov-lineages/pangolin/releases/latest | \
          jq -r ".tag_name" > versions/pangolin-latest-version.txt
          PANGOLIN_VER=$(cat versions/pangolin-latest-version.txt)
          echo $PANGOLIN_VER

          ##Get scorpio version
          curl -sL https://api.github.com/repos/cov-lineages/scorpio/releases/latest | \
          jq -r ".tag_name" > versions/scorpio-latest-version.txt
          scorpio_VER=$(cat versions/scorpio-latest-version.txt)
          echo $scorpio_VER

      - name: Check for modified files
        id: git-check
        run: echo ::set-output name=modified::$([ -z "`git status --porcelain`" ] && echo "false" || echo "true")

      - name: Login to Docker Hub
        uses: docker/login-action@v1
        with:
          username: ${{ secrets.DOCKER_HUB_USERNAME }}
          password: ${{ secrets.DOCKER_HUB_ACCESS_TOKEN }}

      - name: Set up Docker Buildx
        id: buildx
        uses: docker/setup-buildx-action@v1

      - name: Build new docker image
        shell: bash
        run: |
          echo  ${{ steps.date.outputs.date }}
          REPO_VER=$(cat versions/pangolin-latest-version.txt | sed 's|v||')
          pangolin_data_VER=$(cat versions/pangolin-data-latest-version.txt | sed 's|v||')
          scorpio_VER=$(cat versions/scorpio-latest-version.txt | sed 's|v||')
          constellations_VER=$(cat versions/constellations-latest-version.txt | sed 's|v||')
          #Build docker for pangolin-check for specific requirements
          docker build --no-cache -f environments/pangolin/Dockerfile -t genomicmedicinesweden/gms-artic-pangolin:latest -t genomicmedicinesweden/gms-artic-pangolin:${{ steps.date.outputs.date }}-p-${REPO_VER}-d-${pangolin_data_VER}-c-${constellations_VER}-s-${scorpio_VER} --build-arg PANGOLIN_VER=v${REPO_VER} .

      - name: Push Docker image to DockerHub
        shell: bash
        run: |
          REPO_VER=$(cat versions/pangolin-latest-version.txt | sed 's|v||')
          pangolin_data_VER=$(cat versions/pangolin-data-latest-version.txt | sed 's|v||')
          scorpio_VER=$(cat versions/scorpio-latest-version.txt | sed 's|v||')
          constellations_VER=$(cat versions/constellations-latest-version.txt | sed 's|v||')
          #Push to dockerhub for pangolin with specific requirements
          docker image push genomicmedicinesweden/gms-artic-pangolin:latest
          docker image push genomicmedicinesweden/gms-artic-pangolin:${{ steps.date.outputs.date }}-p-${REPO_VER}-d-${pangolin_data_VER}-c-${constellations_VER}-s-${scorpio_VER}

  keepalive-job:
    name: Keepalive Workflow
    runs-on: ubuntu-latest
    permissions:
      actions: write
    steps:
      - uses: actions/checkout@v2
      - uses: gautamkrishnar/keepalive-workflow@v2