Is there a cleaner way that I can supply an addition Rprofile from the command line? Regards, Peng On Tue, Aug 11, 2009 at 11:27 AM, Charlie Sharpsteen<chuck at="" sharpsteen.net=""> wrote: > A quick and dirty way would be to add the following line to the beginning of > your scripts: > > source( '/path/to/additional/Rprofile' ) > > -Charlie > On Tue, Aug 11, 2009 at 9:41 AM, Peng Yu <pengyu.ut at="" gmail.com=""> wrote: >> >> Hi, >> >> When I use Rscript, I want that it load an additional Rprofile file >> besides the default ones. I don't find such an option. Can somebody >> let me know if there is such an option? >> >> Regards, >> Peng >> >> ______________________________________________ >> R-help at r-project.org mailing list >> 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. > >

Hi, On Aug 11, 2009, at 9:22 PM, Peng Yu wrote: > Is there a cleaner way that I can supply an addition Rprofile from the > command line? I'm not sure if this will work, but if you look at the second paragraph of Rprofile: ?Rprofile ... R searches for the site-wide startup profile unless the command line option --no-site-file was given. The name of this file is taken from the value of the R_PROFILE environment variable... So how about setting that path to your new/custom Rprofile file in your environment before you run Rscript, eg assuming you are using bash: $ export R_PROFILE='/my/special/Rprofile' $ Rscript blah.R You can put your custom whatever-you-like in there. If you still want it to pull your Rprofile settings from a default Rprofile, like the one you might have in ~/.Rprofile, you can source that at the end of your custom Rprofile script. Perhaps that'll do the trick. -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact

On Tue, Aug 11, 2009 at 9:22 PM, Peng Yu<pengyu.ut at="" gmail.com=""> wrote: > Is there a cleaner way that I can supply an addition Rprofile from the > command line? Hi, Peng. You might want to check out this: http://watson.nci.nih.gov/cran_mirror/doc/manuals/R-intro.html #Customizing-the-environment R doesn't allow exactly what you are asking, I do not think, but there is quite a bit of flexibility. If none of these options suits your needs, you might want to write to the R-help list with exactly what you are trying to do. Sean > On Tue, Aug 11, 2009 at 11:27 AM, Charlie > Sharpsteen<chuck at="" sharpsteen.net=""> wrote: >> A quick and dirty way would be to add the following line to the beginning of >> your scripts: >> >> source( '/path/to/additional/Rprofile' ) >> >> -Charlie >> On Tue, Aug 11, 2009 at 9:41 AM, Peng Yu <pengyu.ut at="" gmail.com=""> wrote: >>> >>> Hi, >>> >>> When I use Rscript, I want that it load an additional Rprofile file >>> besides the default ones. I don't find such an option. Can somebody >>> let me know if there is such an option? >>> >>> Regards, >>> Peng >>> >>> ______________________________________________ >>> R-help at r-project.org mailing list >>> 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. >> >> > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >