[R-SIG-Mac] PATH

[Guillaume Meurice]

Dear all,


I can't figure out how R.app is getting my environment variable $PATH.

Launching R via a terminal perfectly get my $PATH variable : 

> Sys.getenv()[["PATH"]]
[1] "/Users/meurice/Documents/Developement/eclipseWorkSpace/ibp/genomics/utils/bash/:.:/usr/texbin/:/usr/local/texlive/2011/bin/x86_64-darwin:/opt/local/bin:/opt/local/sbin:/Users/meurice/Documents/Application/BioinfoTools/bowtie2-2.0.0-beta3:/Users/meurice/Documents/Developement/eclipseWorkSpace/ibp/genomics/utils/bash/:.:/usr/texbin/:/usr/local/texlive/2011/bin/x86_64-darwin:/opt/local/bin:/opt/local/sbin:/Users/meurice/Documents/Applications/BioinfoTools/bowtie2-2.0.0-beta3:/Users/meurice/Documents/Developement/eclipseWorkSpace/ibp/genomics/utils/bash/:.:/usr/texbin/:/usr/local/texlive/2011/bin/x86_64-darwin:/opt/local/bin:/opt/local/sbin:/Users/meurice/Documents/Tools/bowtie2-2.0.0-beta3:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/texbin:/usr/X11/bin"


But when I'm launching R with R.app (or R studio), the $PATH I get from Sys.getenv() has nothing to do with my current and real $PATH : 

> Sys.getenv()[["PATH"]]
[1] "/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin"


I've managed to set up the $PATH directory through the use of .Renviron, but I would really like R.app to read my $PATH from 
my .bash_profil, which is not the case.


Thanks by advance for any help.
--
GM


> sessionInfo()
R version 2.14.0 (2011-10-31)
Platform: i386-apple-darwin9.8.0/i386 (32-bit)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
[1] snowfall_1.84 snow_0.3-8   

loaded via a namespace (and not attached):
[1] tools_2.14.0