ci_coverage.yml

name: Coverage

on:
  push:
    branches:
      - 'main'
  pull_request:
    types:
      - unlabeled
  workflow_dispatch:

concurrency:
  group: coverage-${{ github.event.pull_request.number || github.ref }}
  cancel-in-progress: false

env:
  SHARG_NO_VERSION_CHECK: 1
  TZ: Europe/Berlin

defaults:
  run:
    shell: bash -Eexuo pipefail {0}

jobs:
  build:
    name: ${{ matrix.name }}
    runs-on: ubuntu-22.04
    timeout-minutes: 120
    if: github.repository_owner == 'seqan' || github.event_name == 'workflow_dispatch' || github.event.label.name == 'lint'
    strategy:
      fail-fast: true
      matrix:
        include:
          - name: "gcc13"
            compiler: "gcc-13"
            build_type: Coverage

    steps:
      # How many commits do we need to fetch to also fetch the branch point?
      - name: Get fetch depth
        id: fetch_depth
        run: echo "depth=$(( ${{ github.event.pull_request.commits }} + 2 ))" >> $GITHUB_OUTPUT

      - name: Checkout
        uses: actions/checkout@v3
        with:
          fetch-depth: ${{ steps.fetch_depth.outputs.depth }}
          submodules: recursive

      - name: Setup toolchain
        uses: seqan/actions/setup-toolchain@main
        with:
          compiler: ${{ matrix.compiler }}
          ccache_size: 125M

      - name: Install CMake
        uses: seqan/actions/setup-cmake@main
        with:
          cmake: 3.18.6

      - name: Install gcovr
        run: |
          sudo update-alternatives --install /usr/bin/gcov gcov /usr/bin/${CC/gcc/gcov} 100
          pip install gcovr==6.0

      - name: Configure tests
        run: |
          mkdir build
          cd build
          cmake .. -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} \
                   -DCMAKE_CXX_FLAGS="-Wno-interference-size" \
                   -DCHOPPER_NATIVE_BUILD=OFF
          make -j2 gtest_build

      - name: Build tests
        env:
          CCACHE_IGNOREOPTIONS: "-fprofile-abs-path"
        run: |
          ccache -z
          cd build
          make -k -j2 api_test cli_test display_layout measure_hyperloglog
          ccache -sv

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

      - name: Generate coverage report
        run: |
          gcovr --gcov-executable ${{ github.workspace }}/lib/seqan3/.github/workflows/scripts/gcov.sh \
                --root ${{ github.workspace }}/test/coverage \
                ${{ github.workspace }}/build \
                --filter ${{ github.workspace }}/include \
                --filter ${{ github.workspace }}/src \
                --exclude ${{ github.workspace }}/src/measure_hyperloglog.cpp \
                --exclude ${{ github.workspace }}/src/display_layout \
                --exclude-lines-by-pattern '^\s*$' \
                --exclude-lines-by-pattern '^\s*};$' \
                --exclude-lines-by-pattern '^.*GCOVR_EXCL_LINE.*$' \
                --exclude-unreachable-branches \
                --exclude-throw-branches \
                --exclude-noncode-lines \
                -j 2 \
                --xml \
                --output ${{ github.workspace }}/build/coverage_report.xml

      - name: Submit coverage build
        uses: codecov/codecov-action@v3
        with:
          token: ${{ secrets.CODECOV_TOKEN }}
          files: ${{ github.workspace }}/build/coverage_report.xml
          fail_ci_if_error: false