c-cpp.yml

name: covtobed
'on':
  push:
    branches:
      - master
  pull_request:
    branches:
      - master
jobs:
  Build:
    runs-on: '${{ matrix.os }}'
    strategy:
      matrix:
        os:
          - ubuntu-18.04
    steps:
      - name: Install dependencies (Ubuntu)
        if: runner.os == 'Linux'
        run: |-
          sudo apt-get update
          sudo apt-get install -y clang-3.9 g++-6 libbamtools-dev
      - uses: actions/checkout@v2
      - run: '[ $CXX = g++ ] && export CXX=g++-6 || true'
      - run: '[ $CXX = clang++ ] && export CXX=clang++-3.9 || true'
      - run: >-
          g++ -std=c++11 *.cpp -I/usr/include/bamtools
          /usr/lib/x86_64-linux-gnu/libbamtools.a  -o covtobed -lz
      - run: ./covtobed -h
      - run: ./covtobed test/demo.bam > /dev/null
      - run: ./covtobed --physical-coverage test/mp.bam > /dev/null
      - run: bash test/test.sh