File: TroubleshootingTheHubs.R

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r-bioc-annotationhub 3.14.0%2Bdfsg-2
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## ----setup, include=FALSE-------------------------------------------------------------------------
knitr::opts_chunk$set(eval = FALSE)

## ----eval=FALSE-----------------------------------------------------------------------------------
#  
#         # make sure you have permissions on the cache/files
#         # use at own risk
#  
#  
#  	moveFiles<-function(package){
#  	    olddir <- path.expand(rappdirs::user_cache_dir(appname=package))
#  	    newdir <- tools::R_user_dir(package, which="cache")
#  	    dir.create(path=newdir, recursive=TRUE)
#  	    files <- list.files(olddir, full.names =TRUE)
#  	    moveres <- vapply(files,
#  		FUN=function(fl){
#  		  filename = basename(fl)
#  		  newname = file.path(newdir, filename)
#  		  file.rename(fl, newname)
#  		},
#  		FUN.VALUE = logical(1))
#  	    if(all(moveres)) unlink(olddir, recursive=TRUE)
#  	}
#  
#  
#  	package="AnnotationHub"
#  	moveFiles(package)

## ----eval=FALSE-----------------------------------------------------------------------------------
#  
#         path.expand(rappdirs::user_cache_dir(appname="AnnotationHub"))

## ----eval=FALSE-----------------------------------------------------------------------------------
#  
#      library(AnnotationHub)
#      package = "AnnotationHub"
#  
#      oldcache = path.expand(rappdirs::user_cache_dir(appname=package))
#      setAnnotationHubOption("CACHE", oldcache)
#      ah = AnnotationHub(localHub=TRUE)
#      ## removes old location and all resources
#      removeCache(ah, ask=FALSE)
#  
#      ## create the new default caching location
#      newcache = tools::R_user_dir(package, which="cache")
#      setAnnotationHubOption("CACHE", newcache)
#      ah = AnnotationHub()