[R] how to define PKG_CONFIG_PATH ?

From: Wolfgang RAFFELSBERGER <wraff_at_igbmc.fr>
Date: Tue, 31 May 2011 11:11:43 +0000


Dear List,

as I'm trying to install R and Rgraphwiz on a Fedora Linux, I have a problem with the environement variable "PKG_CONFIG_PATH". The library "libgvc" is not getting recognized / found, although a recent version libgvc is on the system and can be seen via /usr/lib64. I've tried to edit the paths described in /etc/ldpaths but without any success. Any hints how I can tell the system where to search for libgvc ?

Thank's in advance,
Wolfgang

Below the complete commands & error message and sessionInfo :

> source("http://www.bioconductor.org/biocLite.R")
BioC_mirror = http://bioconductor.org
Change using chooseBioCmirror().
> biocLite("Rgraphviz")

Using R version 2.13.0, biocinstall version 2.8.4. Installing Bioconductor version 2.8 packages: [1] "Rgraphviz"
Please wait...

trying URL 'http://bioconductor.org/packages/2.8/bioc/src/contrib/Rgraphviz_1.30.1.tar.gz' Content type 'application/x-gzip' length 730304 bytes (713 Kb) opened URL



downloaded 713 Kb

Welcome to the R installation at the IGBMC !

   For news about installation updates (and other related issues) please      subscribe to the 'BioInfoClub' newsgroup at the IGBMC.    You may also have a look at our Wiki at http://lbgi.igbmc.fr/wikili/index.php/R    If you need additional libraries installed please contact wraff_at_igbmc.fr

The downloaded packages are in

        '/tmp/RtmpO9nhoK/downloaded_packages' Warning message:
In install.packages(pkgs = pkgs, repos = repos, ...) :   installation of package 'Rgraphviz' had non-zero exit status
>
> ##for completeness :
>
> sessionInfo()

R version 2.13.0 (2011-04-13)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
[1] C

attached base packages:
[1] stats graphics grDevices utils datasets methods base

loaded via a namespace (and not attached): [1] tools_2.13.0
>

. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Wolfgang Raffelsberger, PhD
IGBMC,
1 rue Laurent Fries, 67404 Illkirch Strasbourg, France Tel (+33) 388 65 3300 Fax (+33) 388 65 3276 wolfgang.raffelsberger (at ) igbmc.fr

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https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Received on Tue 31 May 2011 - 13:57:10 GMT

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