8000 Merge pull request #503 from seqan/dependabot/github_actions/codecov/… #1202
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # SPDX-FileCopyrightText: 2006-2025 Knut Reinert & Freie Universität Berlin | |
| # SPDX-FileCopyrightText: 2016-2025 Knut Reinert & MPI für molekulare Genetik | |
| # SPDX-License-Identifier: CC0-1.0 | |
| 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 -Eeuxo pipefail {0} | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| name: ${{ matrix.compiler }} | |
| if: github.repository_owner == 'seqan' || github.event_name == 'workflow_dispatch' || github.event.label.name == 'lint' | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| compiler: ["gcc-14"] | |
| container: | |
| image: ghcr.io/seqan/${{ matrix.compiler }} | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Setup cache | |
| uses: seqan/actions/setup-actions-cache@main | |
| - name: Configure tests | |
| run: | | |
| mkdir build && cd build | |
| cmake ../test/coverage -DCMAKE_BUILD_TYPE=Coverage \ | |
| -DCMAKE_CXX_FLAGS="-Wno-interference-size" | |
| make gtest_main | |
| - name: Build tests | |
| working-directory: build | |
| run: | | |
| ccache -z | |
| make -k | |
| ccache -svvx | |
| - name: Run tests | |
| working-directory: build | |
| run: ctest . -j --output-on-failure | |
| - name: Get CodeCov token | |
| id: token | |
| run: | | |
| set +x | |
| token=$(yq '.codecov.token' .codecov.yml) | |
| echo "::add-mask::${token}" | |
| echo "token=${token}" >> "${GITHUB_OUTPUT}" | |
| - name: Generate coverage report | |
| run: | | |
| gcovr --root ${GITHUB_WORKSPACE}/test/coverage \ | |
| ${GITHUB_WORKSPACE}/build \ | |
| --filter ${GITHUB_WORKSPACE}/include \ | |
| --filter ${GITHUB_WORKSPACE}/src \ | |
| --exclude ${GITHUB_WORKSPACE}/include/raptor/argument_parsing/update_arguments.hpp \ | |
| --exclude ${GITHUB_WORKSPACE}/include/raptor/argument_parsing/update_parsing.hpp \ | |
| --exclude ${GITHUB_WORKSPACE}/include/raptor/update \ | |
| --exclude ${GITHUB_WORKSPACE}/src/argument_parsing/update_parsing.cpp \ | |
| --exclude ${GITHUB_WORKSPACE}/src/update \ | |
| --exclude-lines-by-pattern '^\s*}|^\s*};|.*seqan::hibf::unreachable.*|^\s*\.[^\s]+ = \".*\"' \ | |
| --exclude-noncode-lines \ | |
| --exclude-throw-branches \ | |
| --exclude-unreachable-branches \ | |
| --merge-mode-functions separate \ | |
| -j \ | |
| --cobertura \ | |
| --output ${GITHUB_WORKSPACE}/build/coverage_report.xml | |
| - name: Submit coverage report | |
| uses: codecov/codecov-action@v5.4.3 | |
| with: | |
| disable_search: true | |
| fail_ci_if_error: false | |
| files: build/coverage_report.xml | |
| flags: stable | |
| plugins: noop | |
| token: ${{ steps.token.outputs.token }} | |
| - name: Generate coverage report | |
| run: | | |
| rm ${GITHUB_WORKSPACE}/build/coverage_report.xml | |
| gcovr --root ${GITHUB_WORKSPACE}/test/coverage \ | |
| ${GITHUB_WORKSPACE}/build \ | |
| --filter ${GITHUB_WORKSPACE}/include/raptor/argument_parsing/update_arguments.hpp \ | |
| --filter ${GITHUB_WORKSPACE}/include/raptor/argument_parsing/update_parsing.hpp \ | |
| --filter ${GITHUB_WORKSPACE}/include/raptor/update \ | |
| --filter ${GITHUB_WORKSPACE}/src/argument_parsing/update_parsing.cpp \ | |
| --filter ${GITHUB_WORKSPACE}/src/update \ | |
| --exclude-lines-by-pattern '^\s*}|^\s*};|.*seqan::hibf::unreachable.*|^\s*\.[^\s]+ = \".*\"' \ | |
| --exclude-noncode-lines \ | |
| --exclude-throw-branches \ | |
| --exclude-unreachable-branches \ | |
| --merge-mode-functions separate \ | |
| -j \ | |
| --cobertura \ | |
| --output ${GITHUB_WORKSPACE}/build/coverage_report.xml | |
| - name: Submit coverage report | |
| uses: codecov/codecov-action@v5.4.3 | |
| with: | |
| disable_search: true | |
| fail_ci_if_error: false | |
| files: build/coverage_report.xml | |
| flags: experimental | |
| plugins: noop | |
| token: ${{ steps.token.outputs.token }} |