Hello, without touching upon any recent changes in biocLite, I would recommend the following simple way to install packages without administrator rights. 1. Create an environment variable called "R_LIBS" and point that a writeable directory where you want your packages to go to. For example in the ~/.bashrc set something like: export R_LIBS="${HOME}/rpackages" Syntax is bit different for other shells and I guess it's possible to do this under Windows as well. 2. Start up R and install packages using biocLite() or install.packages(). The directory defined in the variable "R_LIBS" will be the first entry returned by ".libPaths()" (verify that) and thus used as default installation directory. HTH, Joern On 11/29/2011 10:02 AM, andrea.grilli at ior.it wrote: > Hi Firas, > I had similar problems working in linux. If it's also your case, I > solved changing administrative privileges to paths were all packages > are installed: > sudo chmod 777 -R /usr/lib/R > sudo chmod 777 -R /usr/local/lib/R/site-library > > Maybe this is not the conventional way, but allows me to update all > libraries without creating a new personal folder each time R is > updated to a new version. > Hope this help, > Andrea > > > ----- Messaggio inoltrato da stvjc at channing.harvard.edu ----- > Data: Fri, 25 Nov 2011 11:27:50 -0500 > Da: Vincent Carey <stvjc at="" channing.harvard.edu=""> > Rispondi-A:Vincent Carey <stvjc at="" channing.harvard.edu=""> > Oggetto: Re: [BioC] Installing Bioconductor packages on R 2.14.0 > *without* administrator rights / from a script > A: Firas Swidan <firas at="" biomatters.com=""> > Cc: bioconductor at r-project.org > > Are you sure this is specific to bioconductor installation? Does > install.packages() with a CRAN package selection work for you? If it > does > not, you should study the R installation and administration guide > available > at R project manuals, and pose residual questions at r-help. > > Defining folders where packages can be installed can be accomplished with > .libPaths() in the session. Check the value of this, and add a writeable > folder and try again once you have done so. If you can make no progress > with this advice, send the result of sessionInfo() and the attempted > values > of .libPaths and perhaps more concrete advice can be given. The details > will depend on the specific version of windows you are using along with > aspects of the security setup, which may not be readily reproducible > outside your site. But in general you should be able to install > libraries > in personally writeable folders, without administrative privileges, you > just have to set the parameters appropriately. These are laid out in > some > detail in the installation and administration manual. > > -- Joern Toedling, PhD Core Facility Bioinformatics Institute of Molecular Biology gGmbH (IMB) http://www.imb-mainz.de