update pkgdown yml #63
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| on: [push] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: write | |
| container: bioconductor/bioconductor_docker:devel | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| if: runner.os != 'Windows' | |
| uses: actions/cache@v1 | |
| with: | |
| path: /usr/local/lib/R/site-library | |
| key: ${{ runner.os }}-r-1-${{ hashFiles('.github/depends.Rds') }} | |
| restore-keys: ${{ runner.os }}-r-1- | |
| # This lets us augment with additional dependencies | |
| # - name: Install system dependencies | |
| # if: runner.os == 'Linux' | |
| # env: | |
| # RHUB_PLATFORM: linux-x86_64-ubuntu-gcc | |
| # GITHUB_PAT: ${{ secrets.OMICSIGNATURE_TOKEN }} | |
| # run: | | |
| # Rscript -e "remotes::install_github('r-hub/sysreqs')" | |
| # sysreqs=$(Rscript -e "cat(sysreqs::sysreq_commands('DESCRIPTION'))") | |
| # sudo -s eval "$sysreqs" | |
| - name: Install dependencies | |
| run: | | |
| BiocManager::install(version = "3.21", ask = FALSE) | |
| remotes::install_deps(dependencies = TRUE, repos = BiocManager::repositories()) | |
| remotes::install_cran("rcmdcheck") | |
| shell: Rscript {0} | |
| - name: Check | |
| env: | |
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | |
| run: rcmdcheck::rcmdcheck(args = c("--no-manual"), error_on = "warning", check_dir = "check") | |
| shell: Rscript {0} | |
| # Push docker image to docker hub | |
| #- uses: docker/build-push-action@v1 | |
| # with: | |
| # username: ${{ secrets.DOCKER_USERNAME }} | |
| # password: ${{ secrets.DOCKER_PASSWORD }} | |
| # repository: montilab/rpkgs | |
| # tag_with_ref: true | |
| # tag_with_sha: true | |
| # tags: latest | |
| - name: DevTest | |
| run: | | |
| PATH=$PATH:$HOME/bin/ Rscript -e 'pkgdown::build_site("."); file.copy("README_files", "docs", recursive=TRUE)' | |
| - name: Install deploy dependencies | |
| run: | | |
| apt-get update | |
| apt-get -y install rsync | |
| - name: Deploy 🚀 | |
| uses: JamesIves/github-pages-deploy-action@v4 | |
| with: | |
| token: ${{ secrets.OMICSIGNATURE_TOKEN }} | |
| branch: gh-pages | |
| folder: docs |