rebuild with updated R (changes order of some seealso refs) #648
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| on: | |
| push: | |
| branches: | |
| - develop | |
| pull_request: | |
| branches: | |
| - develop | |
| name: test-coverage | |
| jobs: | |
| test-coverage: | |
| runs-on: macOS-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| # dd: Using gfortran should be easier than this; however, modifying | |
| # ~/.R/Makevars doesn't appear to work in this context; nor does | |
| # ln -s with the library directory. This part of the action is | |
| # temporary and should be removed when CRAN oce can be used | |
| #DEK#- name: Link gfortran for devel oce | |
| #DEK# run: | | |
| #DEK# ln -s `which gfortran-10` /usr/local/bin/gfortran | |
| #DEK# gfortran --version || true | |
| #DEK# ls /usr/local/Cellar/gcc | tail -n 1 | |
| #DEK# | |
| #DEK# sudo mkdir -p /usr/local/gfortran | |
| #DEK# sudo cp -r /usr/local/Cellar/gcc/`ls /usr/local/Cellar/gcc | tail -n 1`/lib/gcc/10 /usr/local/gfortran/lib | |
| #DEK# sudo chmod 755 /usr/local/gfortran | |
| #DEK# sudo chmod 755 /usr/local/gfortran/lib | |
| #DEK# | |
| #DEK# ls /usr/local/gfortran/lib || true | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| uses: actions/cache@v2 | |
| 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: | | |
| install.packages(c("remotes")) | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("covr") | |
| shell: Rscript {0} | |
| ## A refresh of the cache can be forced by incrementing | |
| ## the number at the end of `key`. This should be done whenever | |
| ## the following step downloads new files or when the file format | |
| ## on the server might have changed. | |
| - name: Cache Argo downloads | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ runner.temp }}/argo-cache-dir | |
| key: argo-cache-dir-coverage-1 | |
| - name: Ensure Argo cache directory exists | |
| env: | |
| R_ARGOFLOATS_DESTDIR: ${{ runner.temp }}/argo-cache-dir | |
| run: | | |
| if (!dir.exists(Sys.getenv("R_ARGOFLOATS_DESTDIR"))) { | |
| dir.create(Sys.getenv("R_ARGOFLOATS_DESTDIR")) | |
| } | |
| shell: Rscript {0} | |
| - name: Test coverage | |
| env: | |
| R_ARGOFLOATS_DESTDIR: ${{ runner.temp }}/argo-cache-dir | |
| R_ARGOFLOATS_INDEX_AGE: "Inf" | |
| R_ARGOFLOATS_PROFILE_AGE: "Inf" | |
| run: covr::codecov() | |
| shell: Rscript {0} |