Move README creation for PT reports to assay level #282
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches: [main, master, develop] | |
| pull_request: | |
| branches: [main, master, develop] | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: macos-latest, r: 'release'} | |
| - {os: windows-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} | |
| - {os: ubuntu-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'oldrel-1'} | |
| - {os: ubuntu-latest, r: '4.0.4', pandoc-version: '2.11.4'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup statsrv pandoc | |
| if: ${{ matrix.config.r == '4.0.4' }} | |
| uses: r-lib/actions/setup-pandoc@v2 | |
| with: | |
| pandoc-version: ${{ matrix.config.pandoc-version }} | |
| - name: Setup default pandoc | |
| if: ${{ matrix.config.r != '4.0.4' }} | |
| uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Set up tinytex | |
| uses: r-lib/actions/setup-tinytex@v2 | |
| - name: Preinstall required latex packages | |
| run: > | |
| tlmgr install | |
| lastpage morefloats parskip pdflscape textpos multirow lipsum | |
| fancyhdr colortbl soul setspace relsize makecell threeparttable | |
| threeparttablex environ trimspaces | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - name: Install statsrv packages | |
| if: ${{ matrix.config.r == '4.0.4' }} | |
| run: | | |
| R -q -e 'utils::install.packages("remotes")' | |
| R -q -e 'remotes::install_version("Hmisc", "4.5-0")' | |
| R -q -e 'remotes::install_github("FredHutch/VISCfunctions", dependencies = TRUE)' | |
| R -q -e 'remotes::install_github("FredHutch/VISCtemplates", dependencies = TRUE)' | |
| R -q -e 'utils::install.packages(c("ggplot2", "dplyr"))' | |
| R -q -e 'utils::install.packages("rcmdcheck")' | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| if: ${{ matrix.config.r != '4.0.4' }} | |
| with: | |
| extra-packages: any::rcmdcheck | |
| needs: check | |
| - uses: r-lib/actions/check-r-package@v2 | |
| with: | |
| upload-snapshots: true | |
| build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")' |