R help - Jul 2004 - ESS does not recognize installed libraries

Hi, all. Something strange happened to my ESS.

I use Mac OS X. When R is used in stand alone mode, it recognizes 
external libraries like "affy", "e1071" etc.
However, when R is invoked through ESS in Emacs, it produces errors 
like:
Error in library(affy) : There is no package called 'affy'
Interestingly, I remember I successfully used these libraries through 
ESS in Emacs before.
I became unable to use these libraries at one moment but I don't recall 
anything strange happened before that.
This kind of strange thing happened sometimes to my R.
In those cases, things restored smoothly when the system is restarted.
However, this time, this trick does not work.

Thanks in advance
Tae-Hoon Chung, Ph.D

Post-doctoral Research Fellow
Molecular Diagnostics and Target Validation Division
Translational Genomics Research Institute
1275 W Washington St, Tempe AZ 85281 USA
Phone: 602-343-8724

Are you sure that the R executable is the same when used "stand-alone"
and
in ESS?  

Sean

On 7/6/04 5:12 AM, "Tae-Hoon Chung" <thchung at tgen.org> wrote:
> Hi, all. Something strange happened to my ESS.
> 
> I use Mac OS X. When R is used in stand alone mode, it recognizes
> external libraries like "affy", "e1071" etc.
> However, when R is invoked through ESS in Emacs, it produces errors
> like:
> Error in library(affy) : There is no package called 'affy'
> Interestingly, I remember I successfully used these libraries through
> ESS in Emacs before.
> I became unable to use these libraries at one moment but I don't recall
> anything strange happened before that.
> This kind of strange thing happened sometimes to my R.
> In those cases, things restored smoothly when the system is restarted.
> However, this time, this trick does not work.
> 
> Thanks in advance
> Tae-Hoon Chung, Ph.D
> 
> Post-doctoral Research Fellow
> Molecular Diagnostics and Target Validation Division
> Translational Genomics Research Institute
> 1275 W Washington St, Tempe AZ 85281 USA
> Phone: 602-343-8724
> 
> ______________________________________________
> R-help at stat.math.ethz.ch mailing list
> https://www.stat.math.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
>

Do you by any chance have multiple versions of R installed ? The first
two lines of the header in the iESS buffer should give a clue. Example :

R : Copyright 2004, The R Foundation for Statistical Computing
Version 1.9.1  (2004-06-21), ISBN 3-900051-00-3

How does that compare to the header in your terminal/standalone mode. If
different, then you may have to set your global path to R correctly.

Other than that, it could be that some of your library paths are
missing. Try '.find.package("affy")' on your terminal. See if
this path
is included in '.libPaths()' on your emacs/ESS interface.


On Tue, 2004-07-06 at 10:12, Tae-Hoon Chung wrote:
> Hi, all. Something strange happened to my ESS.
> 
> I use Mac OS X. When R is used in stand alone mode, it recognizes 
> external libraries like "affy", "e1071" etc.
> However, when R is invoked through ESS in Emacs, it produces errors 
> like:
> Error in library(affy) : There is no package called 'affy'
> Interestingly, I remember I successfully used these libraries through 
> ESS in Emacs before.
> I became unable to use these libraries at one moment but I don't recall
> anything strange happened before that.
> This kind of strange thing happened sometimes to my R.
> In those cases, things restored smoothly when the system is restarted.
> However, this time, this trick does not work.
> 
> Thanks in advance
> Tae-Hoon Chung, Ph.D
> 
> Post-doctoral Research Fellow
> Molecular Diagnostics and Target Validation Division
> Translational Genomics Research Institute
> 1275 W Washington St, Tempe AZ 85281 USA
> Phone: 602-343-8724
> 
> ______________________________________________
> R-help at stat.math.ethz.ch mailing list
> https://www.stat.math.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
>