[BioC] [R] Fwd: Rgraphviz installation problem

[Martin Morgan]

On 07/25/2011 07:58 AM, Ram H. Sharma wrote:
> Hi All
>
> How can I adjust this path. My current path of Graphviz installation is:
>
> C:\Program Files (x86)\Graphviz2.20\bin
>
> and Rgraphviz is
>
> C:\R\library\Rgraphviz\libs\i386
>
> Please help me. I am new to Rgraphviz.

PATH is an environment variable. From the R FAQ for Windows

http://cran.fhcrc.org/bin/windows/base/rw-FAQ.html#How-do-I-set-environment-variables_003f

"For all applications via Windows. How you set an environment variable 
is system specific: under Windows 2000/XP/Server 2003 you can use 
`System' in the control panel or the properties of `My Computer' (under 
the `Advanced' tab). Under Vista/7, go to `User Accounts' in the Control 
Panel, and select your account and then `Change my environment variables'."

Create a 'New' user variable named PATH, with value

   C:\Program Files (x86)\Graphviz2.20\bin

If a value already exists for PATH, add the above, separated by a 
semicolon ;. Restart R and check that the path is set correctly

   path <- strsplit(Sys.getenv("PATH"), ";")[[1]]
   dir(path[grepl("Graphviz2.20", path)])

should return several file names, including, e.g., libgraph-4.dll. 
Install Rgraphviz with

   source("http://bioconductor.org/biocLite.R")
   biocLite('Rgraphviz")

>
> Ram
>
>
>
>
> "your Windows system 'PATH' variable needs to be adjusted once you've
> installed graphviz and before installing Rgraphviz"
>
> ---------- Forwarded message ----------
> From: Martin Morgan<mtmorgan at fhcrc.org>
> Date: Mon, Jul 25, 2011 at 9:25 AM
> Subject: Re: [R] Rgraphviz installation problem
> To: "Ram H. Sharma"<sharma.ram.h at gmail.com>
> Cc: r-help at r-project.org
>
>
> On 07/25/2011 06:05 AM, Ram H. Sharma wrote:
>
>> Dear experts
>>
>> I installed Rgraphviz with the following command:
>>
>>
>> source("http://www.**bioconductor.org/biocLite.R<http://www.bioconductor.org/biocLite.R>
>> ")
>>
>>      biocLite("Rgraphviz")
>>
>>
>> But had a problem when I tried to load it.
>>
>> This says that libcdt-4.dll is missing in your computer and the following
>> message in R window:
>>
>>   library("Rgraphviz")
>>>
>> Loading required package: graph
>> Loading required package: grid
>> Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details:
>>    call: value[[3L]](cond)
>>    error: unable to load shared object
>> 'C:/R/library/Rgraphviz/libs/**i386/Rgraphviz.dll':
>>    LoadLibrary failure:  The specified module could not be found.
>>
>>
>>    Check that (1) graphviz is installed on your system; (2) the
>>
>
> you need to install graphviz, as well as Rgraphviz.
>
>
>     installed version of graphviz matches '2.20.3'; this is the version
>>    used to build this Rgraphviz package; (3) graphviz is accessible to
>>
>
> graphviz has to be a specific version.
>
>
>     R, e.g., the path to the graphviz 'bin' directory is in the system
>>    'PATH' variable.  See additional instructions in the 'README' file of
>>
>
> your Windows system 'PATH' variable needs to be adjusted once you've
> installed graphviz and before installing Rgraphviz
>
>
>     the Rgraphviz 'source' distribution, available at
>>
>>    http://bioconductor.org/**packages/release/bioc/html/**Rgraphviz.html<http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html>
>>
>
> additional details are at the url above. For instance, the specific version
> of graphviz required is
>
>   http://www.graphviz.org/pub/**graphviz/stable/windows/**
> graphviz-2.20.3.1.msi<http://www.graphviz.org/pub/graphviz/stable/windows/graphviz-2.20.3.1.msi>
>
>
>     Ask further questions on the Bioconductor mailing list
>>
>>    http://bioconductor.org/docs/**mailList.html<http://bioconductor.org/docs/mailList.html>
>>
>
> if you have more questions, ask on the Bioconductor mailing list.
>
> Martin
>
>
>
>> Error: package/namespace load failed for 'Rgraphviz'
>>
>>
>> Help me please.
>>
>>
>>
>


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

Location: M1-B861
Telephone: 206 667-2793