[BioC] Problems encountered using affy in R

Rafael A. Irizarry ririzarr at jhsph.edu
Wed Mar 5 09:54:59 MET 2003

from the email archive:

>From merk at ibe.med.uni-muenchen.de Tue Mar  4 09:17:04 2003
Date: Tue, 04 Mar 2003 13:54:53 +0100
From: Sylvia Merk <merk at ibe.med.uni-muenchen.de>
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] Re: memory problem with Affy

Hi Philippe,

for your tkWidgets-Problem:
A few weeks ago I had the same problem.
I installed ActiveTcl8.3.5.0 to c:\Tcl
Then I set the environment variable TCL_LIBRARY to the path 
After that tkWidgets worked.

greetings, sylvia

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On Wed, 5 Mar 2003 mary.e.logue at ucd.ie wrote:

> Hello everyone,
> I am new to R. I have downloaded R 1.6.2 from CRAN. Then I followed 
> the instructions on the bioconductor website for windows (I'm using 
> windows 2000 professional) and typed in getBioC(libName="affy"). I 
> answered yes to download XML version >= 0.92-2. It then said that the 
> following packages were not updated: annotate, genefilter, geneplotter, 
> edd, ROC, multtest, affy. vsn, Biobase, tkWidgets.
> I then installed affy using the install package option in R. 
> I then loaded affy by typing library(affy) and tried to read in some files 
> by typing affyfiles <- ReadAffy (widget=T). It gave the following 
> message:
> Loading required package: tkWidgets
> Loading required package: tcltk
> Error in firstlib(which.lib.loc, package):
>              TCD_library is not set
> Error in eval(expr, envir, enclos): tcl/tk package 'tcltk' not available --
> forget about 'tkWidgets'!
> I don't know what to do now so your help would be very much 
> appreciated.
> Regards,
> Mary Logue
> Mary Logue,
> Department of Biochemistry,
> Conway Institute of Biomolecular and Biomedical Research,
> University College Dublin,
> Belfield,
> Dublin 4
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