[BioC] Getting LimmaGUI to run

stefano iacus stefano.iacus at unimi.it
Fri Jul 8 23:52:43 CEST 2005

There is no binary for tkrplot for OS X yet, but you can install it  
from source with manual tricks

here is a msg from Jan De Leeuw on the subject

--start of msg--
Yes, there is a way to make it work. You have to download it, then  
build it
with R CMD INSTALL, and then move to the src directory and repeat the  
final link
statement (cut and paste) with the "--bundle -o tkrplot.so" replaced by
"--dynamic -o libtkrplot.dylib". Then move libtrkplot.dylib by hand  
to the lib dirctory
of the tkrplot installation and change the code at the end of  
tkrplot.R such that
it uses the dylib extension.

R CMS SHLIB just builds a bundle, not a library.
--end of msg--

to install from source you need to go into the shell and not the R.app


On 08/lug/05, at 22:47, chris umbricht wrote:

>   I'm trying to invoke limmaGUI(),
> and get the following message from the limmaGUI App(?)/window
> (R2.1, BioC 1.6, OS X.3.9)
> "Cannot find Tcl/Tk package "BWidget".  limmaGUI cannot continue.
> limmaGUI requires the Tcl/Tk extensions, BWidget and Tktable."
> as well as a bunch of unix directory stuff discussing if R can find  
> the
> right path for the Tcl/Tk extensions in a special error popupwindow.
> Am I correct in assuming my Tcl/Tk environment is ok except for the
> missing BWidget ± Tktable, since the R package manager lists them as
> loaded (*)?
> And if so, where do I find the BWidget ± Tktable extensions?
> (*) including: tcltk, tkWidgets, widgetTools, but NOT widgetInvoke,
> which gives me the following error:
> "Loading required package: RGtk
> Error in eval(expr, envir, enclos) : Requires RGtk
> Error: unable to load R code in package 'widgetInvoke'
> Error: package/namespace load failed for 'widgetInvoke'"
> Moreover, when I try to download tkrplot from CRAN, I get:
> "trying URL
> 'http://cran.us.r-project.org/bin/macosx/2.1/tkrplot_0.0-12.tgz'
> Error in download.file(url, destfile, method, mode = "wb") :
>     cannot open URL
> 'http://cran.us.r-project.org/bin/macosx/2.1/tkrplot_0.0-12.tgz'
> trying URL 'http://cran.us.r-project.org/bin/macosx/2.1/PACKAGES'
> Content type 'text/plain' length 27380 bytes
> opened URL
> ==================================================
> downloaded 26Kb"
> thanks for your time.
> chris
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