it.yml

name: IT

on: workflow_dispatch

jobs:
  build:
    runs-on: ubuntu-latest

    env:
        NO_GCE_CHECK: true
        SPARK_LOCAL_IP: localhost
    steps:
      - uses: actions/checkout@v2
      - uses: actions/setup-java@v2
        with:
          java-version: '11'
          distribution: 'zulu'
      - uses: actions/cache@v2
        with:
          path: ~/.m2
          key: ${{ runner.os }}-m2-${{ hashFiles('**/pom.xml') }}
          restore-keys: ${{ runner.os }}-m2
      - run: sudo apt-get -y install libcurl4-openssl-dev
      - run: src/build/bin/install-samtools.sh
      - run: src/build/bin/install-bcftools.sh
      - run: src/build/bin/checkout-gatk-large-files.sh
      - run: mvn --batch-mode verify -Ddisq.test.real.world.files.dir=gatk/src/test/resources/large -Ddisq.test.real.world.files.ref=gatk/src/test/resources/large/human_g1k_v37.20.21.fasta -Ddisq.samtools.bin=/usr/bin/samtools -Ddisq.bcftools.bin=/usr/bin/bcftools