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.gitignore
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.gitignore
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# R and RStudio files.
.Rhistory
.RData
.Rproj.user
.Rproj.user/
# 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
# Protected Information; see cubuspl42's answer in http://stackoverflow.com/questions/2415873/exceptions-in-gitignore
/unshared_material/*
/data_unshared/*
/data/unshared/derived/*
/reports/correlation-3/pulmonary-forest-manual/*
/sandbox/meta-analysis/images/*
studies/map/physical-cogntive/outputs/*.dat
studies/map/physical-cogntive/outputs/*/*.dat
# Unnecessary files for knitr reports
# 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
# Exclude caches in case they contain PHI
cache/
*/cache/
*/*/cache/
## Above is the template, below is custom
*/unshared/*
*/*/unshared/*
*/*/*/unshared/*
*/*/*/*/unshared/*
output/studies/map/phys-cog/*
output/studies/octo/phys-cog/*
output/studies/lasa/phys-cog/*
output/studies/map/*
output/*/*/*/*/*/*
!output/README.md
!output/*/*.md
!output/*/*/*.md
!output/*/*/*/*.md
!output/*/*/*/*/*.md
!output/*/*/*/*/*/*.md
!output/*/*/*/*/*/*/*.md
studies/*/unshared/*
reports/anatomy-physical/*/*/*.png
data/unshared
# Prevent possible data in outputs
# Dataset Exceptions
!UtilityScripts/PackageDependencyList.csv
# Keep the README files in the unshared directories. They provide documentation, and also force the directories to be created on other machines.
!data/unshared/README.md
# README htmls in any folder
README.html
## Mplus dgm files
*.dgm
*.gh5
*.dat
*.inp
## mplus automation log
*Models.log
# Documents
/libs/materials/*
*.db
*.db
*.ini
*.ini
libs/literature/replication/2015-Maxwell-Lau-Howard.pdf
studies-2017-04-24.rar
data/shared/derived/ls_catalog.rds
data/shared/derived/ls_catalog_dem_criteria.rds
libs/drafts/pulmonary-2017-05-04-koval-edits.docx
libs/drafts/pulmonary-2017-05-04.docx
*.sav
libs/drafts/pulmonary-2017-05-23.docx
libs/drafts/pulmonary-ije_coi_form-signed.pdf
libs/drafts/pulmonary/revision-2/All Tables for Pulmonary Paper.xlsx
libs/drafts/pulmonary/revision-2/Figures/Fig1 Systematic Review Flow Chart.jpg
libs/drafts/pulmonary/revision-2/Figures/Fig3 and Supp Figs2 and 3 (Forest Plot Figures).xlsx
libs/drafts/pulmonary/revision-2/Figures/Supp Fig1 Detailed Systematic Review Flow Chart.jpg
libs/drafts/pulmonary/revision-2/Pulmonary Paper 2017-06-09.docx
libs/drafts/pulmonary/revision-2/~$lmonary Paper 2017-06-09.docx
libs/drafts/pulmonary/revision-2/Figures/Fig2 Coordinated Anlysis Model Specification.docx
sandbox/meta-analysis/MetaAnalysis_Piccinin.xlsx