.gitignore

# ---- R and RStudio files -----------------------------------------------
.Rhistory
.Rapp.history
.RData
.Rproj.user
.Rproj.user/

# Output files from R CMD build
/*.tar.gz

# Output files from R CMD check
/*.Rcheck/

# produced vignettes
vignettes/*.html
vignettes/*.pdf

# 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

# ---- Protected Information -----------------------------------------------
# see cubuspl42's answer in http://stackoverflow.com/questions/2415873/exceptions-in-gitignore
/unshared-material/*
/data-unshared/*
/data/unshared/*

libs/materials/*
!libs/materials/talks/README.md
!libs/materials/2018-10-31-when-notebooks-are-not-enough.pdf
!libs/materials/2018-11-01-visualizing-logistic-regression.pdf

reports/*/prints/*.png
reports/*/prints/*/*.png
reports/*/prints/*/*/*.png
reports/*/prints/*/*/*/*.png
reports/*/prints/*/*/*/*/*.png
reports/*/*/prints/*.png
reports/*/*/prints/*/*.png
reports/*/*/prints/*/*/*.png
reports/*/*/prints/*/*/*/*.png
reports/*/*/prints/*/*/*/*/*.png
reports/*/*/*/prints/*.png
reports/*/*/*/prints/*/*.png
reports/*/*/*/prints/*/*/*.png
reports/*/*/*/prints/*/*/*/*.png
reports/*/*/*/prints/*/*/*/*/*.png
reports/*/*/*/*/prints/*.png
reports/*/*/*/*/prints/*/*.png
reports/*/*/*/*/prints/*/*/*.png
reports/*/*/*/*/prints/*/*/*/*.png
reports/*/*/*/*/prints/*/*/*/*/*.png
!reports/technique-demonstration/prints/*/*.png
!reports/coloring-book-mortality/prints/*/*.png

sandbox/*/prints/*.*
sandbox/*/prints/*/*.*
sandbox/*/prints/*/*/*.*
sandbox/*/prints/*/*/*/*.*
sandbox/*/prints/*/*/*/*/*.*
sandbox/*/*/prints/*.*
sandbox/*/*/prints/*/*.*
sandbox/*/*/prints/*/*/*.*
sandbox/*/*/prints/*/*/*/*.*
sandbox/*/*/prints/*/*/*/*/*.*
sandbox/*/*/*/prints/*.*
sandbox/*/*/*/prints/*/*.*
sandbox/*/*/*/prints/*/*/*.*
sandbox/*/*/*/prints/*/*/*/*.*
sandbox/*/*/*/prints/*/*/*/*/*.*
sandbox/*/*/*/*/prints/*.*
sandbox/*/*/*/*/prints/*/*.*
sandbox/*/*/*/*/prints/*/*/*.*
sandbox/*/*/*/*/prints/*/*/*/*.*
sandbox/*/*/*/*/prints/*/*/*/*/*.* 

# 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/
*/cache/
*/*/cache/

# knitr and R markdown default cache directories
/*_cache/
/cache/

# ---- Windows -----------------------------------------------
# Cached small image files
Thumbs.db

# Folder config file
Desktop.ini
reports/eda-1/figure-png/*.png
libs/materials/ipdln-2018-banff-hackathon-results-2018-09-14.pptx

# --- exceptions --------------------------
!data-unshared/contents.md
data-public/raw/IPDLN_Hackathon_Synth_Data_Codebook_Final.docx