Add ability to set GSL seed #13
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| # This workflow uses actions that are not certified by GitHub. | |
| # They are provided by a third-party and are governed by | |
| # separate terms of service, privacy policy, and support | |
| # documentation. | |
| # | |
| # See https://github.com/r-lib/actions/tree/master/examples#readme for | |
| # additional example workflows available for the R community. | |
| name: Valgrind Check | |
| on: | |
| pull_request: | |
| branches: [ "main" ] | |
| # push: | |
| # branches: [ "github-actions-build" ] | |
| workflow_dispatch: | |
| permissions: | |
| contents: read | |
| jobs: | |
| valgrind-check: | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| RSPM: https://packagemanager.rstudio.com/cran/__linux__/jammy/latest | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| ## R CMD check | |
| _R_CHECK_CRAN_INCOMING_: false | |
| _R_CHECK_LENGTH_1_CONDITION_: true | |
| _R_CHECK_LENGTH_1_LOGIC2_: true | |
| _R_CHECK_MATRIX_DATA_: true | |
| ## Specific to package | |
| _R_CHECK_USE_VALGRIND_: true | |
| VALGRIND_OPTS: '--leak-check=full --track-origins=yes' | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: release | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| uses: actions/cache@v3 | |
| 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 system dependencies | |
| env: | |
| RHUB_PLATFORM: linux-x86_64-ubuntu-gcc | |
| run: | | |
| Rscript -e "remotes::install_github('r-hub/sysreqs')" | |
| sysreqs=$(Rscript -e "cat(sysreqs::sysreq_commands('DESCRIPTION'))") | |
| sudo -s eval "$sysreqs" | |
| sudo apt-get install --yes valgrind | |
| - name: Install dependencies | |
| run: | | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("rcmdcheck") | |
| shell: Rscript {0} | |
| - name: Session info | |
| run: | | |
| options(width = 100) | |
| pkgs <- installed.packages()[, "Package"] | |
| sessioninfo::session_info(pkgs, include_base = TRUE) | |
| shell: Rscript {0} | |
| - name: Check with valgrind | |
| run: rcmdcheck::rcmdcheck(build_args = "--no-build-vignettes", args = c("--use-valgrind", "--no-codoc", "--no-examples", "--no-manual", "--ignore-vignettes"), error_on = "warning", check_dir = "check") | |
| shell: Rscript {0} | |
| # - name: Upload check results | |
| # if: failure() | |
| # uses: actions/upload-artifact@v3 | |
| # with: | |
| # name: ${{ runner.os }}-rrelease-results | |
| # path: check | |
| # builder: | |
| # runs-on: ${{ matrix.config.os }} | |
| # name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| # strategy: | |
| # fail-fast: false | |
| # matrix: | |
| # config: | |
| # - {os: windows-latest, r: 'release'} | |
| # - {os: ubuntu-latest, r: 'release'} | |
| # - {os: macos-latest, r: 'release'} | |
| # - {os: windows-latest, r: '4.2'} | |
| # - {os: ubuntu-latest, r: '4.2'} | |
| # - {os: macos-latest, r: '4.2'} | |
| # env: | |
| # R_KEEP_PKG_SOURCE: yes | |
| # steps: | |
| # # see this for details: https://msmith.de/2020/03/12/r-cmd-check-github-actions.html | |
| # - name: Configure git | |
| # run: git config --global core.autocrlf false | |
| # - uses: actions/checkout@v3 | |
| # - uses: r-lib/actions/setup-pandoc@v2 | |
| # - uses: r-lib/actions/setup-tinytex@v2 | |
| # - uses: r-lib/actions/setup-r@v2 | |
| # - uses: r-lib/actions/setup-r-dependencies@v2 | |
| # with: | |
| # cache-version: 2 | |
| # extra-packages: | | |
| # any::ggplot2 | |
| # any::rcmdcheck | |
| # any::roxygen2 | |
| # needs: | | |
| # check | |
| # roxygen2 | |
| # - name: Install gsl (Mac) | |
| # if: runner.os == 'macOS' | |
| # run: | | |
| # brew install gsl | |
| # - name: Build package (Windows) | |
| # if: runner.os == 'Windows' | |
| # shell: cmd | |
| # run: R CMD build --no-build-vignettes . | |
| # - name: Build package | |
| # if: runner.os == 'Linux' || runner.os == 'macOs' | |
| # run: R CMD build --no-build-vignettes . | |
| # - name: Test Install (Windows) | |
| # if: runner.os == 'Windows' | |
| # shell: cmd | |
| # run: R CMD INSTALL --build ToxicR_23.4.1.1.0.tar.gz | |
| # - name: Test Install | |
| # if: runner.os == 'Linux' || runner.os == 'macOs' | |
| # run: R CMD INSTALL --build ToxicR_23.4.1.1.0.tar.gz | |
| # - name: Upload package (Windows) | |
| # if: runner.os == 'Windows' | |
| # uses: actions/upload-artifact@v3 | |
| # with: | |
| # path: ToxicR_23.4.1.1.0.zip | |
| # name: ToxicR_23.4.1.1.0-${{ runner.os }}-R.${{ matrix.config.r }}.zip | |
| # - name: Upload package (Linux) | |
| # if: runner.os == 'Linux' | |
| # uses: actions/upload-artifact@v3 | |
| # with: | |
| # path: ToxicR_23.4.1.1.0_R_x86_64-pc-linux-gnu.tar.gz | |
| # name: ToxicR_23.4.1.1.0-x86_64-linux-R.${{ matrix.config.r }}.zip | |
| # - name: Upload package (macOs) | |
| # if: runner.os == 'macOs' | |
| # uses: actions/upload-artifact@v3 | |
| # with: | |
| # path: ToxicR_23.4.1.1.0.tgz | |
| # name: ToxicR_23.4.1.1.0-x86_64-macOs-R.${{ matrix.config.r }}.tgz |