similar to: using R-devel independently of sid packages

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

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

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 have not intentionally set R_LIBS_USER. I looked for an Renviron.site file but did not see it in R/etc or my home directory. The strange part is that if I print Sud.getenv I see a value for R_LIBS_USER. However, this directory is not showing under libPaths. I though .libPaths should contain R_LIBS_USER. I also noticed that R related variables are not in the system or user variables because I

Hi, Having currently a big problem with R 2.10.1 vanilla (Solaris): As soon as the R_LIBS_USER env var gets bigger than 1023 chars R completely ignores it and uses the default: > Sys.getenv('R_LIBS_USER'); R_LIBS_USER "${R_LIBS_USER-~/R/i386-pc-solaris2.11-library/2.10}" The strange thing is, if I set another envar to the same

I'm not sure I follow what.the problem is. Are you trying to set R_LIBS_USER but R does not acknowledge it, or do you observe something in R that you didn't expect to be there and you are trying to figure out why that is / where that happens? Henrik On Sep 16, 2017 07:10, "Rene J Suarez-Soto" <rene.j.suarez at gmail.com> wrote: > I have a computer where R_LIBS_USER is

I'm relaying a question from my institute's sysadmin: Would it be possible to modify update.packages() and related functions so that 'lib.loc' accepts integer values to specify a library from the .libPaths() vector? Many Linux users want to update all user packages (inside the R_LIBS_USER directory, e.g. ~/r/library) and none of the system packages (inside the /usr directory,

I want my local libraries to have priority over the system installed ones, which, as far as I can make out from help(".libPaths"), means they have to come first in that list (it doesn't actually_say_ so, but that seems to be the idea). We have R_LIBS_USER which looks made for specifying where I keep my own libraries. Unfortunately it comes last in .libPaths() [which appears to

Hi, When using method L-BFGS-B along with a parscale argument, should the lower and upper bounds provided be on the scaled or unscaled values? Thanks. Cheers, -- Seb

Le 10/01/2023 ? 11:37, Serguei Sokol a ?crit?: > Le 10/01/2023 ? 10:44, RICHET Yann a ?crit?: >> Dear R-devel people, >> >> We are working to submit a package which is mainly a binding over a >> C++ lib (https://github.com/libKriging) using armadillo. >> It is _not_ a standard RcppArmadillo package, because we also had to >> provide a python binding... so

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

Dear all, the recent update to R-3.4.1 kind of screwed the path to the libraries installed on a user basis. The previous version of the file /etc/R/Renviron had the following line activated: R_LIBS_USER=${R_LIBS_USER-'~/R/x86_64-pc-linux-gnu-library/3.4'} This one is commented in the current one which means that the path to the libraries installed previously is not found. I never

Hello, The package cts on CRAN generated a note on some systems. For instance: checking compiled code ... NOTE File ?/home/ripley/R/Lib32/cts/libs/cts.so?: Found ?abort?, possibly from ?abort? (C) which can be found from the link http://www.r-project.org/nosvn/R.check/r-patched-solaris-sparc/cts-00check.html But the package uses Fortran subroutines only without any C subroutines. In

Dear R developers, I recently observed a NOTE on several MaxOS X package checks: sh: line 1: gs: command not found !!! Error: Closing Ghostscript (exit status: 127)! /usr/bin/texi2dvi: thumbpdf exited with bad status, quitting. See for details: http://www.r-project.org/nosvn/R.check/r-release-macosx-ix86/simecol-00check.html or

I have a computer where R_LIBS_USER is not found in libPaths. This is for Windows (x64). I ran R from the command line, RGui and RStudio and I get the same results. I also ran R --vanilla and I still get the discrepancy. The only thing I found interesting was that I also ran SET from the command line and the "R related variables" (e.g., R_HOME; R_LIBS_USER) are not there. Therefore

Hi, I've run into a ridiculous problem I can't find any solutions for in the archives or help pages: data(barley) cutYield <- with(barley, by(yield, variety, cut, breaks = c(0, 30, 60, 90))) As in this example, I'm using 'by' to return a factor for each level of another factor. The problem is that 'by' returns a list of the factors, and I need all these factors

This is a follow-up to a question I asked a few years back. We have a pair of computers that share a common home directory (and therefor a common .Renviron) with identical hardware, but very different sets of libraries such that using a "shared" R_LIBS between two computers does not work. They both use this as the default library for user installations:

dear dirk, i am following up on our thread on r-help-mailinglist. you advised me to bring it over here. when installing packages from within R, they usually go to a directory defined in R_LIBS_USER, which i have it set in .Renviron. when installing packages via sudo apt install r-cran-.., they go to /usr/lib/R/site-library. is there a possibility to have packages installed to the R_LIBS-USER

I would appreciate ideas about MS Windows install issues. I'm at our stats summer camp and have been looking at a lot of Windows R installs and there are some wrinkles about R_LIBS_USER. On a clean Win7 or Win8 system, with R-3.0.1, we see the user library for packages defaulting to $HOME/R/win-library. I think that's awesome, the way it should be. Yea! But it does not appear that way

In R-devel (2015-08-12 r69024), capture.output() incorrectly duplicates the last line unless it ends with a newline. I don't see this in R 3.2.2 RC (2015-08-13 r69049). It seems to have started fairily recently; I spotted this yesterday after starting to get errors in my R.utils check that use capture.output(), cf.