int.yml

name: Integration Tests

on:
  pull_request:

jobs:
  build:
    strategy:
      max-parallel: 4
      matrix:
        os: [ubuntu-latest]
        python-version: ["3.10"]

    runs-on: ${{ matrix.os }}

    name: Integration Tests

    services:
      registry:
        image: registry:2
        ports:
          - 5000:5000

    steps:
      - uses: actions/checkout@v4
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}

      - name: Install requirements
        run: |
          pip install aiohttp
          pip install requests

      - name: Set up Docker Buildx
        uses: docker/setup-buildx-action@v3
        with:
          driver-opts: network=host

      - name: Build
        uses: docker/build-push-action@v5
        with:
          context: .
          push: true
          file: ./Dockerfile
          tags: localhost:5000/beacon-python:latest
          cache-from: localhost:5000/beacon-python:latest
          cache-to: type=local,dest=/tmp/.buildx-cache

      - name: Start Services
        run: |
          docker-compose -f deploy/test/docker-compose.yml up -d
          sleep 10
          docker exec test_beacon_1 beacon_init /exdata/ALL.chrMT.phase3_callmom-v0_4.20130502.genotypes.vcf.gz /exdata/example_metadata.json
          docker exec test_beacon_1 beacon_init /exdata/ALL.chrMT.phase3_callmom-v0_4.20130502.genotypes.vcf.gz /exdata/example_metadata_registered.json
          docker exec test_beacon_1 beacon_init /exdata/ALL.chrMT.phase3_callmom-v0_4.20130502.genotypes.vcf.gz /exdata/example_metadata_controlled.json
          docker exec test_beacon_1 beacon_init /exdata/ALL.chrMT.phase3_callmom-v0_4.20130502.genotypes.vcf.gz /exdata/example_metadata_controlled1.json

      - name: Run Integration test
        run: |
          python deploy/test/run_tests.py

      - name: Collect logs from docker
        if: ${{ failure() }}
        run: cd deploy && docker-compose logs --no-color -t > ../tests/dockerlogs || true

      - name: Persist log files
        if: ${{ failure() }}
        uses: actions/upload-artifact@v3
        with:
          name: test_debugging_help
          path: tests