ci_linux.yml

name: iGenVar CI on Linux

on:
  push:
    branches:
      # Push events to branches matching refs/heads/master
      - 'master'
  pull_request:

env:
  CMAKE_VERSION: 3.16.9
  SHARG_NO_VERSION_CHECK: 1
  TZ: Europe/Berlin

defaults:
  run:
    shell: bash -ex {0}

jobs:
  build:
    name: ${{ matrix.name }}
    runs-on: ubuntu-20.04
    timeout-minutes: 120
    strategy:
      fail-fast: true
      matrix:
        include:
          - name: "Coverage gcc11"
            cxx: "g++-11"
            cc: "gcc-11"
            build: coverage
            build_type: Coverage

          - name: "gcc11"
            cxx: "g++-11"
            cc: "gcc-11"
            build_type: Release

          - name: "gcc10"
            cxx: "g++-10"
            cc: "gcc-10"
            build_type: Release

    steps:
      - name: Set repository name
        run: echo "REPOSITORY_NAME=$(echo '${{ github.repository }}' | awk -F '/' '{print $2}')" >> $GITHUB_ENV

      - name: Checkout
        uses: actions/checkout@v2
        with:
          path: ${{ env.REPOSITORY_NAME }}
          fetch-depth: 2
          submodules: recursive

      - name: Add package source
        run: bash ./${{ env.REPOSITORY_NAME }}/lib/seqan3/.github/workflows/scripts/configure_apt.sh

      - name: Install CMake
        run: bash ./${{ env.REPOSITORY_NAME }}/lib/seqan3/.github/workflows/scripts/install_cmake.sh

      - name: Install ccache
        run: sudo apt-get install --yes ccache

      - name: Install compiler ${{ matrix.cxx }}
        run: sudo apt-get install --yes ${{ matrix.cxx }}

      - name: Install lcov
        if: matrix.build == 'coverage'
        env:
          CC: ${{ matrix.cc }}
        run: |
          sudo apt-get install --yes lcov
          sudo update-alternatives --install /usr/bin/gcov gcov /usr/bin/${CC/gcc/gcov} 100

      - name: Load ccache
        uses: actions/cache@v2
        with:
          path: .ccache
          key: ${{ runner.os }}-${{ matrix.name }}-ccache-${{ github.ref }}-${{ github.run_number }}
          # Restoring: From current branch, otherwise from base branch, otherwise from any branch.
          restore-keys: |
            ${{ runner.os }}-${{ matrix.name }}-ccache-${{ github.ref }}
            ${{ runner.os }}-${{ matrix.name }}-ccache-${{ github.base_ref }}
            ${{ runner.os }}-${{ matrix.name }}-ccache-

      - name: Tool versions
        run: |
          env cmake --version
          env ${{ matrix.cxx }} --version

      - name: Configure tests
        env:
          CXX: ${{ matrix.cxx }}
          CC: ${{ matrix.cc }}
        run: |
          mkdir build
          cd build
          cmake ../${{ env.REPOSITORY_NAME }} -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} -DCMAKE_CXX_FLAGS="${{ matrix.cxx_flags }}"

      - name: Build tests
        env:
          CCACHE_BASEDIR: ${{ github.workspace }}
          CCACHE_DIR: ${{ github.workspace }}/.ccache
          CCACHE_COMPRESS: true
          CCACHE_COMPRESSLEVEL: 6
          CCACHE_MAXSIZE: 500M
        run: |
          ccache -p || true
          cd build
          make -k -j2 api_test cli_test
          ccache -s || true

      - name: Generate coverage baseline
        if: matrix.build == 'coverage'
        run: |
          lcov --directory ./build/ --zerocounters
          lcov --directory ./build/ --capture --initial --output-file ./build/coverage_report.baseline

      - name: Run tests
        run: |
          cd build
          ctest . -j2 --output-on-failure

      - name: Generate coverage report
        if: matrix.build == 'coverage'
        run: |
          lcov --directory ./build/ --capture --output-file ./build/coverage_report.captured
          lcov -a ./build/coverage_report.baseline -a ./build/coverage_report.captured --output-file ./build/coverage_report.total
          lcov --remove ./build/coverage_report.total '/usr/*' '${{ github.workspace }}/${{ env.REPOSITORY_NAME }}/lib/*' '${{ github.workspace }}/${{ env.REPOSITORY_NAME }}/test/*' '${{ github.workspace }}/build/vendor/*' --output-file ./build/coverage_report

      - name: Submit coverage report
        if: matrix.build == 'coverage'
        uses: codecov/codecov-action@v1
        with:
          files: ${{ github.workspace }}/build/coverage_report
          root_dir: ${{ github.workspace }}/${{ env.REPOSITORY_NAME }}