check-recent #59
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| # ==================================================================== # | |
| # TITLE: # | |
| # AMR: An R Package for Working with Antimicrobial Resistance Data # | |
| # # | |
| # SOURCE CODE: # | |
| # https://github.com/msberends/AMR # | |
| # # | |
| # PLEASE CITE THIS SOFTWARE AS: # | |
| # Berends MS, Luz CF, Friedrich AW, Sinha BNM, Albers CJ, Glasner C # | |
| # (2022). AMR: An R Package for Working with Antimicrobial Resistance # | |
| # Data. Journal of Statistical Software, 104(3), 1-31. # | |
| # https://doi.org/10.18637/jss.v104.i03 # | |
| # # | |
| # Developed at the University of Groningen and the University Medical # | |
| # Center Groningen in The Netherlands, in collaboration with many # | |
| # colleagues from around the world, see our website. # | |
| # # | |
| # This R package is free software; you can freely use and distribute # | |
| # it for both personal and commercial purposes under the terms of the # | |
| # GNU General Public License version 2.0 (GNU GPL-2), as published by # | |
| # the Free Software Foundation. # | |
| # We created this package for both routine data analysis and academic # | |
| # research and it was publicly released in the hope that it will be # | |
| # useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY. # | |
| # # | |
| # Visit our website for the full manual and a complete tutorial about # | |
| # how to conduct AMR data analysis: https://msberends.github.io/AMR/ # | |
| # ==================================================================== # | |
| on: | |
| pull_request: | |
| # run in each PR in this repo | |
| branches: '**' | |
| push: | |
| branches: '**' | |
| schedule: | |
| # also run a schedule everyday at 1 AM. | |
| # this is to check that all dependencies are still available (see R/zzz.R) | |
| - cron: '0 1 * * *' | |
| name: check-recent | |
| jobs: | |
| R-code-check: | |
| runs-on: ${{ matrix.config.os }} | |
| continue-on-error: ${{ matrix.config.allowfail }} | |
| name: ${{ matrix.config.os }} (R-${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| # current development version, check all major OSes: | |
| - {os: macOS-latest, r: 'devel', allowfail: false} | |
| - {os: windows-latest, r: 'devel', allowfail: false} | |
| - {os: ubuntu-latest, r: 'devel', allowfail: false} | |
| # current 'release' version, check all major OSes: | |
| - {os: macOS-latest, r: '4.3', allowfail: false} | |
| - {os: windows-latest, r: '4.3', allowfail: false} | |
| - {os: ubuntu-latest, r: '4.3', allowfail: false} | |
| # older versions (see also check-old.yaml for even older versions): | |
| - {os: ubuntu-latest, r: '4.2', allowfail: false} | |
| - {os: ubuntu-latest, r: '4.1', allowfail: false} | |
| - {os: ubuntu-latest, r: '4.0', allowfail: false} | |
| - {os: ubuntu-latest, r: '3.6', allowfail: false} # when a new R releases, this one has to move to check-old.yaml | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| # use RStudio Package Manager to quickly install packages | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::rcmdcheck | |
| needs: check | |
| - uses: r-lib/actions/check-r-package@v2 | |
| env: | |
| _R_CHECK_LENGTH_1_CONDITION_: verbose | |
| _R_CHECK_LENGTH_1_LOGIC2_: verbose | |
| # during 'R CMD check', R_LIBS_USER will be overwritten, so: | |
| R_LIBS_USER_GH_ACTIONS: ${{ env.R_LIBS_USER }} | |
| R_RUN_TINYTEST: true | |
| - name: Show tinytest output | |
| if: always() | |
| run: | | |
| find . -name 'tinytest.Rout*' -exec cat '{}' \; || true | |
| shell: bash |