[R-SIG-Mac] graphviz

[Byron Ellis]

Did you type 'sudo make install'? If not, graphviz may not have  
actually installed itself (making sure /usr/local/bin/dot exists is a  
way to check this)

I recently did an Rgraphviz build for myself using graphviz-2.9  
(though 2.8 should also work fine) and Rgraphviz 1.9.6 (the SVN  
version) and pkg-config (which I get from http:// 
pkgconfig.freedesktop.org/releases/).

I should note that I don't use Fink or Darwinports and that Glen Low  
(author of Graphviz.app) seems to have wandered off to other things  
so the GUI version of Graphviz is pretty massively out of date these  
days.




On Mar 18, 2006, at 6:27 AM, Michael Kubovy wrote:

> Hi Seth,
>
> I installed graphviz 2.8 downloaded from http://www.graphviz.org/pub/
> graphviz/ARCHIVE/graphviz-2.8.tar.gz and compiled using the commands
> ./configure
> make
> make install
>
> It apparently succeeded.
>
> However:
> % which graphviz
> graphviz: Command not found.
>
> Moreover in R I have Rgraphviz 1.8.0, but
>> library(Rgraphviz)
> Loading required package: graph
> Loading required package: cluster
> Loading required package: Ruuid
> Error in dyn.load(x, as.logical(local), as.logical(now)) :
> 	unable to load shared library '/Library/Frameworks/R.framework/
> Resources/library/Rgraphviz/libs/Rgraphviz.so':
>    dlopen(/Library/Frameworks/R.framework/Resources/library/Rgraphviz/
> libs/Rgraphviz.so, 6): Symbol not found: _agedgeattr
>    Referenced from: /Library/Frameworks/R.framework/Resources/library/
> Rgraphviz/libs/Rgraphviz.so
>    Expected in: flat namespace
> Error: .onLoad failed in 'loadNamespace' for 'Rgraphviz'
> Error: package/namespace load failed for 'Rgraphviz'
>
>> version
>           _
> platform powerpc-apple-darwin7.9.0
> arch     powerpc
> os       darwin7.9.0
> system   powerpc, darwin7.9.0
> status
> major    2
> minor    2.1
> year     2005
> month    12
> day      20
> svn rev  36812
> language R
>
> Now to my request:
>
> You wrote to Julin:
>> If you installed a recent graphviz, then there is no dotneat-config
>> script.  Instead, for the autoconf tools to work, you need the
>> pkg-config program installed and PKG_CONFIG_PATH set appropriately
>> (/blah/lib/pkgconfig).
>>
>> But it should also work to pass the --with-graphviz configure option.
>> Something like:
>>
>> R CMD INSTALL --configure-args='--with-graphviz=/blah/graphviz' \
>>     Rgraphviz_x.y.z.tar.gz
>
> Could you please unpack the above to an extent appropriate to the
> level of ignorance you see in my description? In other words I don't
> know about autoconf, or pkg-config, nor how to set the
> PKG_CONFIG_PATH  nor how to determine /blah/lib/pkgconfig what the
> appropriate 'blah' is.
>
> And just to make sure that I'm giving you all the information you
> might need to help me: (1) FinkCommander tells me that I have
> graphviz 1.9-11 installed. (2) I have Graphviz Version 1.13 (16) from
> pixelglow. (I've successfully used it to generate graphs. As is
> probably clear, I'm trying to integrate graphviz into my R toolkit,
> which is not urgent, but would be satisfying.)
>
> Thanks,
> Michael
> _____________________________
> Professor Michael Kubovy
> University of Virginia
> Department of Psychology
> USPS:     P.O.Box 400400    Charlottesville, VA 22904-4400
> Parcels:    Room 102        Gilmer Hall
>          McCormick Road    Charlottesville, VA 22903
> Office:    B011    +1-434-982-4729
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> WWW:    http://www.people.virginia.edu/~mk9y/
>
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---
Byron Ellis (ellis at stat.harvard.edu)
"Oook" -- The Librarian