# ---- R and RStudio files ----------------------------------------------- .Rproj.user/ .Rhistory .RData .Rdata .Ruserdata .Rapp.history # Output files from R CMD build /*.tar.gz # Output files from R CMD check /*.Rcheck/ # R package temporary files inst/doc vignettes/*.html vignettes/*.pdf vignettes/*.R # The devtools zip is downloaded when the package is updating itself. If it's not deleted, there's no reason to commit it to the repository. devtools.zip # OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3 .httr-oauth # Temporary files created by R markdown *.utf8.md *.knit.md # Example code in package build process *-Ex.R # Shiny token, see https://shiny.rstudio.com/articles/shinyapps.html rsconnect/ # ---- Protected Information ----------------------------------------------- # see cubuspl42's answer in http://stackoverflow.com/questions/2415873/exceptions-in-gitignore /unshared-material/* /data-unshared/* /data/unshared/* # Dataset Exceptions !utility/package-dependency-list.csv # Keep the README files in the unshared directories. # They provide documentation, and also force the directories to be created on other machines. # Depending on how you do it, you might need to add w/ the command line # eg, `git add -f ./data-unshared/raw/README.md` !README.md !data-unshared/contents.md !data-unshared/raw/README.md !data-unshared/derived/README.md !data/unshared/contents.md !data/unshared/raw/README.md !data/unshared/derived/README.md # ---- Caches ----------------------------------------------- # Exclude caches in case they contain PHI cache/ # knitr and RMarkdown default cache directories *_cache/ # ---- Windows OS -------------------------------------------- # Cached small image files Thumbs.db # Folder config file Desktop.ini # ---- OS X -------------------------------------------------- .DS_Store # ---- Visual Studio Code (text editor) ---------------------- .vscode/ # ---- Locks ---------------------- # Do not commit lock files. # Programs like Microsoft Word create temporary files that don't contain info useful to the repo. ~*.tmp ~*.temp # Temporary files of Microsoft Office. ~*.doc ~*.docx ~*.xlsx ~*.pptx *.ldb *.laccdb # Temporary locks used by LibreOffice. *.odb.lck .~*.csv# .~*.odf# .~*.odp# .~*.ods# .~*.odt# .~*.docx# .~*.pptx# .~*.xlsx# # ---- Accidentally Added Code ------------------------------- # The GitHub desktop client makes it easy to right-click a file and select 'ignore'. # This will append the file name to the bottom of `.gitignore`. # So the lines below should either be # 1. removed (because they were added unintentionally), or # 2. reorganized and moved above this chunk (so it won't be confused with files added unintentionally). .Rbuildignore analysis/0-greeter/0-greeter-gls-table.html analysis/0-greeter/0-greeter-gls.html analysis/0-greeter/0-greeter-gls-pivot.md analysis/0-greeter/0-greeter-gls.md *.Rproj analysis/gls-activity/gls-activity-2-coverage.md libs/materials/initial-stats-overview.docx