rebuilt README #19
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| # Additional help taken from https://fromthebottomoftheheap.net/2020/04/30/rendering-your-readme-with-github-actions/ | |
| on: | |
| push: | |
| branches: dev | |
| paths: [README.Rmd, render-README.yaml] | |
| name: render-README | |
| jobs: | |
| render: | |
| runs-on: macos-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: install CRAN packages | |
| run: Rscript -e 'install.packages(c("rmarkdown","ggplot2", "dplyr", "purrr", "remotes", "devtools", "BiocManager", "Seurat"), force = TRUE)' | |
| - name: Extra dependencies | |
| id: extra-deps | |
| run: | | |
| install.packages("Matrix", type = "source", force = TRUE) | |
| install.packages("irlba", type = "source", force = TRUE) | |
| install.packages("TMB", type = "source", force = TRUE) | |
| install.packages("glmmTMB", type = "source", force = TRUE) | |
| shell: Rscript {0} | |
| - name: install BioConductor packages | |
| run: Rscript -e 'BiocManager::install(c("SingleCellExperiment", "scater", "scran", "scuttle", "bluster"), force = TRUE)' | |
| - name: install GitHub packages | |
| run: Rscript -e 'remotes::install_github("jr-leary7/scLANE")' | |
| - name: render README | |
| run: Rscript -e 'rmarkdown::render("README.Rmd", output_format = "github_document", output_file = "README.md")' | |
| - name: commit rendered README | |
| run: | | |
| git config --local user.name "jr-leary7" | |
| git config --local user.email "jrleary@live.unc.edu" | |
| git add README.md man/figures/README-* | |
| git commit -m "Recompiled README.Rmd" || echo "No changes to commit" | |
| git push origin || echo "No changes to commit" |