similar to: maintaining multiple R versions

AFAIU, 'R CMD check --as-cran' tries to hide any site and user package libraries by setting R_LIBS_SITE and R_LIBS_USER. However, contrary to R_LIBS_SITE, it fails for R_LIBS_USER and the user's personal library is still available for test scripts. Should I revise my assumptions, or is that intentional? The short version. Shouldn't: $ R_LIBS_USER='' Rscript --vanilla -e

I asked a couple of months ago in r-sig-fedora about a difference I noticed between Ubuntu and RedHat/Fedora. Now I think I've figured out the cause is a little issue in packaging but I don't know how to get it fixed. On Ubuntu, the setup is like this. It i is controlled in a file called Renviron R packages built/distributed in RPM are installed to /usr/lib/R/library. R packages built

On Wed, Mar 18, 2020 at 8:04 PM Dirk Eddelbuettel <edd at debian.org> wrote: > > > On 18 March 2020 at 19:19, Henrik Bengtsson wrote: > | AFAIU, 'R CMD check --as-cran' tries to hide any site and user package > | libraries by setting R_LIBS_SITE and R_LIBS_USER. However, contrary > > What makes you think that? AFAIK --as-cran just sets a bunch of the (nearly

Hi all, I'm trying to check a package using R CMD check --as-cran <package>. When I do so, the check fails upon not finding the dependencies which I have installed in a non-standard location. Per the manual, I created ~/.R/check.Renviron : $ cat ~/.R/check.Renviron R_LIBS=/usr/lib64/R/library:/usr/lib64/R/var R_LIBS_SITE=/usr/lib64/R/library:/usr/lib64/R/var No luck. I tried

This run was done this AM on my linux box, and older 32 bit Dell optiplex (core 2 duo). The failure message is at the very end. (It's due to be replaced in a couple of weeks.) The sequence of steps was svn up tools/rsync-recommended ./configure make make check-all |& tee zzz Terry T. Result of ./config R is now configured for i686-pc-linux-gnu Source directory: .

Hi Dirk, I too would need to get R-devel on my Ubuntu box (alongside an existing R installation) to check my packages, especially given the mayhem that awaits us when the new `R CMD check --as-cran` goes live. ( http://stat.ethz.ch/R-manual/R-devel/doc/html/NEWS.html ) I was wondering if the script that you posted on r-sig-debian a couple years back was still valid. More however, I'd like to

Hi, What is the best way to tell a locally-built R-devel (somewhere in the user home directory) to use the libraries from the Debian installation (i.e. /usr/local/lib/R/site-library and /usr/lib/R/site-library). I suppose this would take setting one or all of R_LIBS, R_LIBS_SITE, R_LIBS_USER in ~/.Renviron, but that would also affect the Debian R in the system so is not an option. How do R

Dear R-devel: i have noticed a little wrinkle in R packaging for RPM systems and have communicated with the package maintainer at RedHat Tom Callaway (see far below). Here is the question: Where does R Core Team want packagers to fiddle around with R library paths? Currently, the RPM Spec file used for EPEL's R (For Fedora/Redhat/Centos,etc) adds a line in R_HOME/etc/Renviron like this:

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

On 18 March 2020 at 19:19, Henrik Bengtsson wrote: | AFAIU, 'R CMD check --as-cran' tries to hide any site and user package | libraries by setting R_LIBS_SITE and R_LIBS_USER. However, contrary What makes you think that? AFAIK --as-cran just sets a bunch of the (nearly countless) environment variables (all described in R Inst+Admin, as I recall) to a set of values "close to"

Dear Johannes, Dear Dirk, Thanks a lot for helping. Here is the missing information. Here is how I installed R. This is basically how Martin Maechler showed me to install R under Ubuntu (in several versions so that they are also recognized by ESS). My goal is to adjust this to make it work for Debian: 1) sudo emacs /etc/apt/sources.list # then add: deb

Does anyone have advice on how to instruct R CMD check to use a non-standard set of libraries? Here's the situation: I'm trying to do some automated checking on package dependencies of a package I maintain. In order to do that I've written code that takes the list of the dependent packages and for each package (1) downloads the most recent/available .tar.gz file; (2) installs the

Hi, I have Debian Testing running on a Lenovo Thinkpad X1 Carbon (2015, 3rd gen.). I would like to have a package library independent of the installed R version. Under Ubuntu, I used to have the following line in ~/.Renviron: R_LIBS=/usr/local/R/library:/usr/lib/R/site-library This worked fine and /usr/local/R/library showed up in .libPaths(). However, under Debian (with the same ~/.Renviron),

[ Kevin sent this to me but agreed that it's better to have this discussed here. ] On 30 January 2010 at 12:18, Kevin Donnelly wrote: | Hi | | I'm beginning to learn R,a nd I've just discovered cran2deb - what a terrific | resource! Thanks for making it. | | I was wondering what happens if I want to use cran2deb versions instead of the | versions installed via R itself. I'm

You may want to retry that after a make distclean, in case anything changed in the toolchain. -pd > On 6 Apr 2017, at 14:43 , Therneau, Terry M., Ph.D. <therneau at mayo.edu> wrote: > > This run was done this AM on my linux box, and older 32 bit Dell optiplex (core 2 duo). The failure message is at the very end. (It's due to be replaced in a couple of weeks.) The sequence

Hello, I am on a laptop with Win7, running R-2.12.1 if I click on Packages/InstallPackages I get : > utils:::menuInstallPkgs() Warning: unable to access index for repository http://cran.skazkaforyou.com/bin/windows/contrib/2.12 Warning: unable to access index for repository http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.12 Error in install.packages(NULL, .libPaths()[1L], dependencies

Hi there, Moving this request for info over from an R-HPC-SIG list thread as the issue is less HPC than something that has bitten me as a result of trying to install HPC (read CUDA) R packages. Background to this is that I have both a Ubuntu host for a Tesla card that some researchers are looking to do CUDA-related R computation on, and a prototype, RHEL-based, cluster that is being used to

Hello. I am using R 1.7.1 just downloaded on Win98. With the old 1.6.2 I had modified the etc/Rprofile file as etc/Rprofile # Things you might want to change # options(width=80) # options(papersize="a4") # options(editor="notepad") # options(pager="internal") # to prefer Compiled HTML help options(chmhelp=TRUE) # to prefer HTML help # options(htmlhelp=TRUE) # to

I just installed R-2.3.1pat under Windows XP as well as the associated RWinEdt. If I start RGui from its shortcut (but do _not_ also start RWinEdt) and then try to execute demo() or help(), I get a RWinEdt pop-up error window with message: File "D:\WP\WinEdtData\WinEdt\D:/WP/WinEdtData/WinEdt/R.ini" does not exist! Qualifier -e/-E does not specify an existing file! First

> .expand_R_libs_env_var("poof/%p/%v") [1] "poof/x86_64-w64-mingw32/3.4" Bill Dunlap TIBCO Software wdunlap tibco.com On Fri, Jan 12, 2018 at 4:49 AM, Loris Bennett <loris.bennett at fu-berlin.de> wrote: > Hi, > > When I install a package as a non-root user, it gets saved in a path > such as > > ~/R/x86_64-unknown-linux-gnu-library/3.4 >