TransferConsensus() #349
Workflow file for this run
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
| # Address Sanitizer: Replicate CRAN's gcc-ASAN 'Additional Test' | |
| on: | |
| workflow_dispatch: | |
| push: | |
| branches: | |
| - main | |
| - master | |
| - '**asan**' | |
| paths: | |
| - '.github/workflows/ASan.yml' | |
| - 'src/**' | |
| - 'inst/include/**' | |
| - 'memcheck/**' | |
| - 'tests/testthat/**.R' | |
| - 'vignettes/**.Rmd' | |
| pull_request: | |
| paths: | |
| - '.github/workflows/ASan.yml' | |
| - 'src/**' | |
| - 'inst/include/**' | |
| - 'memcheck/**' | |
| - 'tests/testthat/**.R' | |
| - 'vignettes/**.Rmd' | |
| name: gcc-ASAN | |
| jobs: | |
| mem-check: | |
| runs-on: ubuntu-24.04 # Update RSPM when increasing | |
| name: AddressSanitizer ${{ matrix.config.test }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {test: 'tests'} | |
| - {test: 'examples'} | |
| - {test: 'vignettes'} | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| _R_CHECK_FORCE_SUGGESTS_: false | |
| RSPM: https://packagemanager.rstudio.com/cran/__linux__/noble/latest | |
| USING_ASAN: true | |
| STRINGI_DISABLE_PKG_CONFIG: true | |
| BIOCONDUCTOR_USE_CONTAINER_REPOSITORY: FALSE # For stringi | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| ASAN_OPTIONS: detect_container_overflow=1:verify_asan_link_order=0 | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - name: Initialize ASan configuration | |
| run: | | |
| export LD_PRELOAD=$(gcc -print-file-name=libasan.so) | |
| # Replace PKG_CXXFLAGS in-place; preserve PKG_CPPFLAGS and PKG_LIBS | |
| sed -i 's/^PKG_CXXFLAGS.*/PKG_CXXFLAGS = -g -O0 -fsanitize=address -fno-omit-frame-pointer/' src/Makevars | |
| echo "PKG_CFLAGS = -g -O0 -fsanitize=address -fno-omit-frame-pointer" >> src/Makevars | |
| mkdir ~/.R | |
| echo "LDFLAGS = -g -O0 -fsanitize=address -fno-omit-frame-pointer" >> ~/.R/Makevars | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: release # CRAN uses devel, but takes ages to load deps. | |
| extra-repositories: https://ms609.github.io/packages/ | |
| - name: Set up R dependencies | |
| uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: | | |
| ms609/TreeDistData | |
| dependencies: "'soft'" | |
| needs: | | |
| memcheck | |
| - name: Install package | |
| run: | | |
| cd .. | |
| R CMD build --no-build-vignettes --no-manual --no-resave-data TreeDist | |
| R CMD INSTALL TreeDist*.tar.gz | |
| cd TreeDist | |
| - name: ASAN - memcheck ${{ matrix.config.test }} | |
| run: | | |
| Rscript memcheck/${{ matrix.config.test }}.R |