Broken tkrplot on Mac OS X

It seems it doesn't work for me either

http://159.149.213.137/R/bin/2.1/check/checkSummaryOSX.html

Will forward to Luke, hopefully he could help
stefano

On 12/mag/05, at 23:13, Simon Urbanek wrote:

Hi Robert,

On May 12, 2005, at 4:48 PM, Robert Gentleman wrote:

  I am getting something a bit weird when I do an install.packages on 
tkrplot,

library(tkrplot)

Error in structure(.External("dotTcl", ..., PACKAGE = "tcltk"), class = 
"tclObj") :
        [tcl] dyld: /Users/rgentlem/R/R-devel/bin/exec/R malformed 
library: /Users/rgentlem/R/R-devel/library/tkrplot/libs/tkrplot.so (not a 
Mach-O library file, bad filetype value)
.
Error in library(tkrplot) : .First.lib failed for 'tkrplot'

can either of you confirm - or point me towards what is wrong with my 
installation -

It's rather a problem with tkrplot than with your installation - it 
compiles tkrplot.so as if it was a library to be loaded into R (via 
dyn.load - more precisely it creates a bundle for R), but then tries to 
load it as dylib using Tcl/Tk. I don't know the exact system how to load 
plug-ins into Tcl/Tk, but I suspect that the tkrplot code needs to be split 
into R part bundle and dylib that is loaded into Tcl/Tk. Chances are that 
the bundle is actually not needed at all, because I don't see any .C/.Call 
in the tkrplot R code. I have to run now, but I can have a closer look 
later this week if it's of interest.

Cheers,
Simon

Dear all--

I have been trying to get the tkrplot package to work in order to use the
bioconductor package genArise.

I am trying to build it on a Mac running OS 10.4.1 with R 2.1.1. Following a
stanadard install from R here the error I get when I try to load tkrplot

library(tkrplot)

Loading required package: tcltk
Loading Tcl/Tk interface ... done
Error in structure(.External("dotTcl", ..., PACKAGE = "tcltk"), class =
"tclObj") :
        [tcl] no suitable image found.  Did find:

/Library/Frameworks/R.framework/Versions/2.1.1/Resources/library/tkrplot/li
b
s/tkrplot.so: not a dylib.
Error in library(tkrplot) : .First.lib failed for 'tkrplot'

Gustavo Corral suggestion was to rebuild the tkrplot.so bundle as a library
by doing:

It can be rather tricky to make it work. You have to download it, then
install it with R CMD INSTALL, then you may need to edit the file Makeconf in
the RHOME/etc directory (the command R RHOME says the path to RHOME
directory).
In this file you must change:

(line 41 in my case)
SHLIB_CXXLDFLAGS = -bundle -flat_namespace -undefined suppress
replaced by:
SHLIB_CXXLDFLAGS = -dynamiclib -flat_namespace -undefined suppress

(line 45 ...)
SHLIB_LDFLAGS = -bundle -flat_namespace -undefined suppress
replaced by:
SHLIB_LDFLAGS = -dynamiclib -flat_namespace -undefined suppress

then move to the src directory in the tkrplot you just download and link
tkrplot
with the statement: R CMD SHLIB -o tkrplot.so. Then move tkrplot.so by hand to

the libs directory of the tkrplot installation (RHOME/library/tkrplot/libs).

That what I did. Now I am having a different error when I try to load
tkrplot...

library(tkrplot)

Loading required package: tcltk
Loading Tcl/Tk interface ... done
Error in structure(.External("dotTcl", ..., PACKAGE = "tcltk"), class =
"tclObj") :
       [tcl] couldn't find procedure Rplot_Init.
Error in library(tkrplot) : .First.lib failed for 'tkrplot'

Any clue as how to fix tkrplot?

Why is this package so difficult to install???

Anyway, I would appreciate any help/suggestions.

Many tx

Marco

Marco Blanchette, Ph.D.

mblanche at uclink.berkeley.edu

Donald C. Rio's lab
Department of Molecular and Cell Biology
16 Barker Hall
University of California
Berkeley, CA 94720-3204

Tel: (510) 642-1084
Cell: (510) 847-0996
Fax: (510) 642-6062