[BioC] issue with graph package in using RBGL -‘'graph' is not a valid installed package’"

[Dan Tenenbaum]

Hi Joe,

On Wed, May 11, 2011 at 8:29 AM, joe j <joe.stata at gmail.com> wrote:
> Dear all,
>
> I am trying to run the function "lambdaSets" using the package "RBGL".
> This package uses another package "graph" which has been removed from
> the CRAN repository, but is available at the archive
> (http://cran.r-project.org/src/contrib/Archive/graph/).
>
> I installed the package from the R menu at "install packages from
> local zip files" (after downloading the "graph_1.30.0.tar.gz" file,
> unzipping it and making it a zip file; gz is not recognized by R.). I
> get no warning here so I assumed installation went well. However, when
> I type "require(RBGL)" I get the error message that: "Failed with
> error:  ‘'graph' is not a valid installed package’".
>
> I am using R version 2.12.2 (2011-2-25). I am a new user so your
> advice would be of great help.
>

'graph' has been removed from CRAN because the package also exists on
Bioconductor, where a newer version is available. To get the latest
version of 'graph', do the following in a new R session:

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

Dan


> Best wishes,
> Joe
>
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