similar to: Documentation for .Renviron (PR#2175)

Hi, I decided to upgrade to 1.8 today... :-) Anyway, we are writing our own package that is dependent on a bioconductor library - 'affy'. I've checked and when I fire up R, library(affy) behaves as expected... so it all seems to be installed and OK... In the DESCRIPTION file in my package source I have the line: Depends: affy When I run R CMD check simpleaffy I get to: ... *

On Debian/Ubuntu, system wide environment variables and options are set in respectively /etc/R/Renviron.site and /etc/R/Rprofile.site. These files are automatically created when r-base is installed, and do not get overwritten during an upgrade. On Fedora, there is no /etc/R directory. What is the recommended place to define system wide environment variables and options on a Fedora system?

Colleagues, I am trying to understand how R (2.12.1) obtains the PATH environment variable in Windows (7 or Vista). Startup {base} directs one to: "R_ENVIRON" -- which equals "" in my systems R_HOME/etc/Renviron.site -- which does not exist Next, it directs to: R_HOME/etc/Rprofile.site -- which also does not exist (the expected behavior in a "factory-fresh"

I recently took "." off my PATH for security reasons and now find that R does not work in my home directory where the .Renviron file resides. The fix is simple. In the R shell startup section replace ". .Renviron" by ". ./.Renviron". The relevant section is: # Startup if ${USE_R_ENVIRON}; then # use the one in current dir, or default if [ -r .Renviron ] then .

Hello, Could someone please tell me why the following doesn't work: I have a file C:\Program Files\R\rw1051\etc\Renviron.site, which contains the line: R_LIBS= "C:/Jim/LocalR-Libraries/FromCran"; "C:/Jim/LocalR-Libraries/Cantata" >From the documentation, I gather that I have put this file in the default location, but to be safe I also explicitly set the R_ENVIRON

Hi, I am interested in customizing the installation of R. I have gone through the ?R Installation and Administration? manual. But some of the stuff is not clear to me and I would like to get clarifications on the following points (for a Windows installation with R_HOME=C:\\R\\R-2.9.1 ) : 1. I understand that I need to create a file, .Renviron with the following path : R_HOME\\etc\\.Renviron where

ligges@statistik.uni-dortmund.de wrote: > > Was on R-help: > > Subject: Re: [R] .Renviron and Renviron.site (on Windows XP) > Date: Thu, 11 Sep 2002 > From: "James Rogers" <jrogers@cantatapharm.com> > > At least on the windows version of R the file > ...../etc/Renviron.site > won't be interpreted as mentioned in, e.g., ?.Renviron. >

When I install a new version of R (Windows XP) I have to: 1. copy my rw....\etc\Rprofile.site file to the new installation 2. copy the rw....\share\texmf files to the tex subfolder of the miktex root directory and then refresh the miktex name database (I have a batch file that does this for me which I run whenever I install a new version of R.) 3. setup the shortcut key using

I've rolled up R-1.6.1.tgz a short while ago. This is a minor upgrade, fixing an assortment of minor bugs, and one major one: 1.6.0 introduced a memory leak in deparsing, causing much trouble for people running simulations. You can get it from the developer site at http://cvs.r-project.org/pub/CRAN/src/base/R-1.6.1.tgz or wait for it to be mirrored at a CRAN site near you. Binaries for

I've rolled up R-1.6.1.tgz a short while ago. This is a minor upgrade, fixing an assortment of minor bugs, and one major one: 1.6.0 introduced a memory leak in deparsing, causing much trouble for people running simulations. You can get it from the developer site at http://cvs.r-project.org/pub/CRAN/src/base/R-1.6.1.tgz or wait for it to be mirrored at a CRAN site near you. Binaries for

Dear all, When installing the usual packages that I use, after installing R 3.0.1, I noticed that the installation of some packages that query R about its configuration did not succeed. The problem is exemplified by: berwin at bossiaea:~$ R-3.0.1 CMD config CC /opt/R/R-3.0.1/lib/R/bin/config: 222: .: Can't open /opt/R/R-3.0.1/lib/R/etc/Renviron Prior to R 3.0.1 such commands worked fine:

Dear R-help, I am trying to use a package (not from CRAN) which includes two shared library (.so) files. The maintainer suggests inserting two lines in /usr/bin/R, LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:path-to-package/lib export LD_LIBRARY_PATH This works, but I felt more comfortable putting the first line in .Renviron or $R_HOME/etc/Renviron.site. However this doesn't seem to work, and I

I am having difficulty coming to grips with Appendix B.2 of the otherwise very useful "An Introduction to R" and the related help file for Startup. I am running RGui 1.6.0 on a Windows 2000 machine from the default installation. How the concepts discussed in B.2 and the Startup help file relate to what I see on my machine is something of a mystery. I quote from the Startup file:

Dear r-helpers, I have been trying to invoke R from Java in a Windows 2000 computer (unfortunately). All my environment variables seem to be properly set, everything seems to be in order, but I obtaining a Fatal error: unable to open the base package error window. Also, the output of the invoker is Loading RInterpreter library R_HOME: R_HOME=C:/Programas/R RVersion: R_VERSION=1.6.1 whereas

First I tried 'setenv R_SHELL /usr/local/bin/bash', as bash is the weapon of choice for the faculty wishing to use R, then ran ./configure as before. The ./configure output line using as R_SHELL for scripts ... /usr/local/bin/bash would seem to indicate that the R_SHELL environment variable was recognized and acknowledged. However, I got the same build error: gnumake[2]: Entering

Dear developers, I am writing a package that depends on some other packages. The dependencies are stated in the `description' file under "Depends". They are installed in my private library, which is pointed to by setting R_LIBS in .Renviron, and are available if R is started normally. However, when I try to `R CMD check' my package, R complains about the dependencies being not

I'm the faculty member in my department who advises our IT staff on the details of installing R for students and faculty on our Windows 7 lab network. We are about to upgrade from R 3.1.1 to R 3.2.1, and once that is done, this version of R and all installed packages will be frozen in the image that appears in C:/Program Files/R/R-3.2.1/ on every lab computer, and this image is refreshed

On 7/28/2015 1:32 PM, Uwe Ligges wrote: > Just add the line > > R_LIBS_SITE=F:/R/library > > to the file R_HOME/etc/x64/Renviron.site Thanks, Uwe I have no way to test this and our IT people who do the installation know nothing of R, so follow-up questions: * There is no R_HOME/etc/x64/Renviron.site file, but there is a R_HOME/etc/Rprofile.site I can modify and ask them to

Martin, I am aware of --vanilla; I use it myself for some testing. In this case R_LIBS_USER was set externally (part of my login) and does not involve any of the R scripts. That means it is inherited by any subprocess. For example: tmt1495% R --vanilla --no-environ R version 3.3.1 (2016-06-21) -- "Bug in Your Hair" Copyright (C) 2016 The R Foundation for Statistical Computing

[RFC = Request for Comments] { Yes, the documentation for .Renviron is really not there (but the FAQ...); the rest is in ?Startup } In R's Startup (on Unix only??) {unless --no-environ is specified} ~/.Renviron (if there) is read as an 'sh' script before R is called, then R looks ((for the site-wide Rprofile and then)) for .Rprofile in the current directory and then for