merge_master_ci.yml

name: 'Merge-master-CI'
on:
  push:
    branches:
      - 'master'
      - 'main'

jobs:
  bump-version:
    runs-on: ubuntu-latest
    name: Bump version and push tags to master
    steps:
      - name: Bump version
        uses: Clinical-Genomics/bump2version-ci@master
        env:
          BUMPVERSION_TOKEN: ${{ secrets.BUMPVERSION_TOKEN }}
          BUMPVERSION_AUTHOR: ${{ secrets.BUMPVERSION_AUTHOR }}
          BUMPVERSION_EMAIL: ${{ secrets.BUMPVERSION_EMAIL }}
          GITHUB_REPOSITORY: ${{ github.repository }}

  docker-image-push:
    runs-on: ubuntu-latest
    name: Push staging docker image to dockerhub
    steps:
      - name: Check out git repository
        uses: actions/checkout@v2

      - name: Extract branch name and remove illegal chars
        id: get_branch_name
        shell: bash
        run: echo "##[set-output name=branch;]$(echo "$(tr "/" "-" <<<${GITHUB_REF#refs/heads/})")"

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

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

      - name: Build and push
        id: docker_build
        uses: docker/build-push-action@v2
        with:
          context: ./
          file: ./Dockerfile
          push: true
          tags: "clinicalgenomics/cg_lims-stage:${{steps.get_branch_name.outputs.branch}}, clinicalgenomics/cg_lims-stage:latest"

  tests-coverage:
    runs-on: ubuntu-latest
    name: Test and coveralls
    steps:
      - name: Set up Python
        uses: actions/setup-python@v2
        with:
          python-version: 3.8

      - name: Check out limsmock
        uses: actions/checkout@v2
        with:
          repository: "Clinical-Genomics/limsmock"

      - name: Install limsmock dependencies
        run: |
          python -m pip install --upgrade pip==21.1.2
          pip install -r requirements.txt -r requirements-dev.txt .

      - name: Check out cg_lims
        uses: actions/checkout@v2
        with:
          repository: "Clinical-Genomics/cg_lims"

      - name: Install cg_lims dependencies
        run: |
          pip install -r requirements.txt -r requirements-dev.txt .

      - name: Install coveralls dependencies
        run: |
          pip install pytest-cov coveralls

      - name: Test with pytest & Coveralls
        run: |
          pytest --cov=cg_lims/
          coveralls
        env:
          GITHUB: 1
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
          COVERALLS_REPO_TOKEN: ${{ secrets.COVERALLS_REPO_TOKEN }}