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List:       bioc-devel
Subject:    Re: [Bioc-devel] Rgraphviz error in Bioconductor 2.2 build
From:       Martin Morgan <mtmorgan () fhcrc ! org>
Date:       2008-05-13 17:48:21
Message-ID: 4829D465.9050509 () fhcrc ! org
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aargh please ignore my last message; the symptom is usually due to a 
version mismatch, but I don't know why the bioc build machine is having 
problems. The purported version used to build Rgraphviz on the build 
machine was 2.16 (not 2.16.1 as in the text but not link below). Martin

Martin Morgan wrote:
> This is usually a symptom of a version mismatch between the version of 
> graphviz used to build Rgraphviz, and the version of graphviz found when 
> Rgraphviz is loaded.
> 
> My guess is that you have graphviz 2.18 installed, but need 2.16.1 to 
> match the version used to build windows Rgraphviz available through 
> biocLite.
> 
> Here's the link to the correct graphviz
> 
> http://www.graphviz.org/pub/graphviz/ARCHIVE/graphviz-win-2.16.bin.tar.gz
> 
> Martin
> 
> rcaloger wrote:
>> Hi,
>> since my package oneChannelGUI suggests Rgraphviz I realized that, in 
>> Bioconductor 2.2 release, the windows version for Rgraphviz
>> is not available due to an error in compilation example compilation.
>>
>> checking examples ... ERROR
>> Running examples in 'Rgraphviz-Ex.R' failed.
>> The error most likely occurred in:
>>
>>> ### * agwrite
>>>
>>> flush(stderr()); flush(stdout())
>>>
>>> ### Name: agwrite
>>> ### Title: A function to write a Ragraph object to a file
>>> ### Aliases: agwrite agread
>>> ### Keywords: graphs
>>>
>>> ### ** Examples
>>>
>>> V <- letters[1:10]
>>> M <- 1:4
>>> g1 <- randomGraph(V, M, .2)
>>> z <- agopen(g1,"foo",layout=FALSE)
>>>
>>
>>
>> Actually I got around using the Rgraphviz from bioconductor 2.1, but I 
>> would like to know if it will be possible to fix the error.
>> Cheers
>> Raffaele
>>
> 
> 


-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N.
PO Box 19024 Seattle, WA 98109

Location: Arnold Building M2 B169
Phone: (206) 667-2793

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