Fix CRAN Issues, fix #71 #467
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| on: | |
| push: | |
| pull_request: | |
| schedule: | |
| - cron: "0 0 2 * *" | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| install_beast2: [true, false] | |
| os: [ubuntu-latest] | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-r@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Install libcurl4-openssl-dev | |
| run: sudo apt install -qq libcurl4-openssl-dev | |
| - name: Fix rJava error # from https://travis-ci.community/t/cannot-connect-to-java-from-r/9754/8 | |
| run: sudo $(which R) CMD javareconf | |
| - name: Install fonts # from https://github.com/r-lib/systemfonts/issues/35#issuecomment-961900755 | |
| run: sudo apt install -qq libfontconfig1-dev | |
| - name: Install libharfbuzz-dev and libfribidi-dev | |
| run: sudo apt install -qq libharfbuzz-dev libfribidi-dev | |
| - name: Install dependencies | |
| run: | | |
| install.packages(c("remotes", "rcmdcheck")) | |
| remotes::install_cran("shiny") | |
| remotes::install_cran("devtools") | |
| remotes::install_github("ropensci/beautier", ref = "develop") | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("rcmdcheck") | |
| remotes::install_cran("covr") | |
| remotes::install_cran("lintr") | |
| remotes::install_github("MangoTheCat/goodpractice") | |
| shell: Rscript {0} | |
| - name: Install BEAST2 | |
| env: | |
| INSTALL_BEAST2: ${{ matrix.install_beast2 }} | |
| run: if [[ "$INSTALL_BEAST2" == true ]]; then ./scripts/install_beast2.sh ; fi | |
| - name: Check | |
| run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error") | |
| shell: Rscript {0} | |
| - name: Make sure that no files are created in the beautier .cache folder | |
| run: testthat::expect_equal(0, length(list.files(rappdirs::user_cache_dir(appname = "beautier")))) | |
| shell: Rscript {0} | |
| - name: Make sure that no files are created in the tracerer .cache folder | |
| run: testthat::expect_equal(0, length(list.files(rappdirs::user_cache_dir(appname = "tracerer")))) | |
| shell: Rscript {0} | |
| - name: Make sure that no files are created in the beastier .cache folder | |
| run: testthat::expect_equal(0, length(list.files(rappdirs::user_cache_dir(appname = "beastier")))) | |
| shell: Rscript {0} | |
| - name: Test coverage | |
| env: | |
| INSTALL_BEAST2: ${{ matrix.install_beast2 }} | |
| run: if [[ "$INSTALL_BEAST2" == true ]]; then Rscript -e 'covr::codecov()'; fi | |
| - name: Lint | |
| env: | |
| INSTALL_BEAST2: ${{ matrix.install_beast2 }} | |
| run: if [[ "$INSTALL_BEAST2" == false ]]; then Rscript -e 'lintr::lint_package()'; fi | |
| - name: Install beastier | |
| run: remotes::install_github("richelbilderbeek/beastier", ref = "develop") | |
| shell: Rscript {0} | |
| if: ${{ always() }} | |
| - name: Report | |
| run: beastier::beastier_report() | |
| shell: Rscript {0} | |
| if: ${{ always() }} | |