PathDist() improvements
#444
Workflow file for this run
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| # For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag. | |
| # https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions | |
| on: | |
| workflow_dispatch: | |
| push: | |
| branches: | |
| - main | |
| - master | |
| paths-ignore: | |
| - "Meta**" | |
| - "docs**" | |
| - "**.git" | |
| - "**.json" | |
| - "**.md" | |
| - "**.yml" | |
| - "!**memcheck.yml" | |
| - "**.R[dD]ata" | |
| - "**.Rpro*" | |
| pull_request: | |
| branches: | |
| - main | |
| - master | |
| paths-ignore: | |
| - "Meta**" | |
| - "docs**" | |
| - "**.git" | |
| - "**.json" | |
| - "**.md" | |
| - "**.yml" | |
| - "!**memcheck.yml" | |
| - "**.R[dD]ata" | |
| - "**.Rpro*" | |
| name: mem-check | |
| jobs: | |
| mem-check: | |
| runs-on: ubuntu-22.04 | |
| name: valgrind ${{ matrix.config.test }}, ubuntu, R release | |
| 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__/focal/latest | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: release | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | |
| shell: Rscript {0} | |
| - name: Install additional dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y texlive-latex-base texlive-fonts-recommended libglpk40 wget valgrind | |
| sudo apt-get install -y valgrind texlive-latex-base | |
| - name: Install system dependencies | |
| run: | | |
| while read -r cmd | |
| do | |
| eval sudo $cmd | |
| done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", gsub("#\\d+~(\\d{2}\\.\\d{2}).*", "\\1", Sys.info()[["version"]]))') | |
| - name: Reinstall stringi | |
| run: | | |
| install.packages("stringi", type = "source") | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| uses: actions/cache@v4 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }} | |
| restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1- | |
| - name: Install dependencies | |
| run: | | |
| remotes::install_github('RcppCore/Rcpp') | |
| remotes::install_github('ms609/TreeTools') | |
| remotes::install_github('ms609/TreeDistData') | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("devtools") | |
| shell: Rscript {0} | |
| - name: Install TreeDist | |
| run: | | |
| cd .. | |
| R CMD build --no-manual --no-resave-data TreeDist | |
| R CMD INSTALL TreeDist*.tar.gz | |
| cd TreeDist | |
| - name: valgrind - memcheck ${{ matrix.config.test }} | |
| run: | | |
| R -d "valgrind --tool=memcheck --leak-check=full --errors-for-leak-kinds=definite --error-exitcode=1" --vanilla < memcheck/${{ matrix.config.test }}.R |