[BioC] tkrplot in R2.0 on Mac OS X

James Wettenhall wettenhall at wehi.edu.au
Tue Nov 23 00:18:08 CET 2004

Hi Rahul,

I have found tkrplot to be a little tricky to build from source 
on MacOS X.  The reasons for using tkrplot in limmaGUI and 
affylmGUI were actually only relevant to the Windows operating 
system when using the MDI (Multiple Document Interface) for R, 
(avoiding R graphics device and Tk windows "fighting" over which 
window was on top / focussed).

So in the latest affylmGUI, (post-BioC release), you can choose 
whether to use tkrplot or the regular R graphics device (Quartz 
for Mac?) from the Plot menu, and on on Mac, the regular R 
graphics device should be the default now.

The latest affylmGUI is at

Perhaps tkrplot will be phased out of limmaGUI and affylmGUI 
eventually - especially as the plots cannot be resized by 
dragging a corner.


 On Mon, 22 Nov 2004, Rahul Kakkar wrote:

> I am trying to get affylmGUI working in Rv2.0 on a Mac OS 10.3 machine. 
>   The only trouble I am having is with tkrplot.  When I try and install 
> it from source, the package installer, or from the "install.packages2" 
> command, I get the following error:
>  > install.packages2("tkrplot")
> Note: You did not specify a download type.  Using a default value of: 
> Source
> This will be fine for almost all users
> [1] "Attempting to download tkrplot from 
> http://www.bioconductor.org//CRANrepository"
> [1] "Download complete."
> [1] "Installing tkrplot"
> * Installing *source* package 'tkrplot' ...
> configure: creating ./config.status
> config.status: creating src/Makevars
> ** libs
> gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include 
> -I/usr/local/include -I/usr/local/include -I/usr/X11R6/include 
> -I/usr/local/include   -fno-common  -g -O2 -c tcltkimg.c -o tcltkimg.o
> tcltkimg.c:1: tk.h: No such file or directory
> make: ** Removing '/Users/rkakkar/Library/R/library/tkrplot'
> ** Restoring previous '/Users/rkakkar/Library/R/library/tkrplot'
> *** [tcltkimg.o] Error 1
> ERROR: compilation failed for package 'tkrplot'
>  From URL:  http://www.bioconductor.org//CRANrepository
> 	tkrplot version 0.0-10
> Warning message:
> Installation of package tkrplot had non-zero exit status in: 
> installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce)
>  >
> any ideas?
> Many thanks,
> Rahul
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor

James Wettenhall                                  Tel: (+61 3) 9345 2629
Division of Genetics and Bioinformatics           Fax: (+61 3) 9347 0852
The Walter & Eliza Hall Institute         E-mail: wettenhall at wehi.edu.au
 of Medical Research,                     Mobile: (+61 / 0 ) 438 527 921    
1G Royal Parade,
Parkville, Vic 3050, Australia

More information about the Bioconductor mailing list