[ALZ-179] Use CSV-based table insertion #279
Workflow file for this run
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| on: | |
| push: | |
| branches: | |
| - master | |
| - release* | |
| pull_request: | |
| branches: | |
| - master | |
| - release* | |
| workflow_dispatch: | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.os }} | |
| name: ${{ matrix.os }} (${{ matrix.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-22.04, macos-13] | |
| # r: [4.1.3, 4.2.3, 4.3.1] | |
| r: [4.3.3] | |
| # - {os: windows-latest, r: '4.0.3'} | |
| # - {os: macOS-latest, r: 'devel'} | |
| # - {os: macOS-latest, r: '4.3.3'} | |
| # - {os: ubuntu-20.04, r: '4.3.3'} | |
| # - {os: ubuntu-20.04, r: '4.1.3', rspm: "https://packagemanager.rstudio.com/cran/__linux__/bionic/latest"} | |
| # - {os: ubuntu-20.04, r: '4.0.3', rspm: "https://packagemanager.rstudio.com/cran/__linux__/bionic/latest"} | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| # RSPM: ${{ matrix.config.rspm }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.r }} | |
| # - name: Query dependencies | |
| # run: | | |
| # install.packages('remotes') | |
| # saveRDS(remotes::dev_package_deps(dependencies = TRUE), "depends.Rds", version = 2) | |
| # shell: Rscript {0} | |
| # | |
| # - name: Cache R packages | |
| # if: runner.os != 'Windows' | |
| # uses: actions/cache@v1 | |
| # with: | |
| # path: ${{ env.R_LIBS_USER }} | |
| # key: ${{ runner.os }}-r-${{ matrix.config.r }}-${{ hashFiles('depends.Rds') }} | |
| # restore-keys: ${{ runner.os }}-r-${{ matrix.config.r }}- | |
| - name: Install system dependencies (Linux) | |
| if: runner.os == 'Linux' | |
| run: | | |
| export DEBIAN_FRONTEND=noninteractive | |
| sudo apt-get -y update | |
| # sudo add-apt-repository ppa:cran/libgit2 | |
| # sudo apt-get update | |
| # sudo apt-get install libgit2-dev | |
| sudo apt-get install -y make python3-minimal pandoc pandoc-citeproc git-core libv8-dev libxml2-dev libcurl4-openssl-dev libssl-dev libssh2-1-dev zlib1g-dev | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Install dependencies | |
| run: | | |
| install.packages('remotes') | |
| remotes::install_cran("rcmdcheck") | |
| remotes::install_cran("httr") | |
| remotes::install_github("Sage-Bionetworks/dccvalidator") | |
| shell: Rscript {0} | |
| - uses: r-lib/actions/setup-renv@v2 | |
| # - name: Install system dependencies (macOS) | |
| # if: runner.os == 'macOS' && matrix.config.r == 'devel' | |
| # run: | | |
| # brew install V8 | |
| # brew install libgit2 | |
| # | |
| # # TODO: Remove when https://github.com/r-lib/xml2/issues/296 is fixed on CRAN | |
| # - name: Install dev version of xml2 | |
| # if: runner.os == 'macOS' && matrix.config.r == 'devel' | |
| # run: | | |
| # remotes::install_github('r-lib/xml2') | |
| # shell: Rscript {0} | |
| - name: Check | |
| run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "warning", check_dir = "check") | |
| shell: Rscript {0} | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@master | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.r }}-results | |
| path: check |