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

[Uwe Ligges]

On 11.05.2011 16:51, joe j 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/).


They are removed in order not to double host them. In the first place, 
both are BioConductor packages and you can get them using 
install.packages(c("graph", RBGL"), dependencies=TRUE)) after 
chooseBioCmirror() and setRepositories().




> 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’".

You downloaded the source package (in a tar.gz file) but used the 
mechanism to install a binary package (in a zip file). Either learn how 
to install from sources (see manual R Installation and Administration) 
or use BioConductor mirrors.

Uwe Ligges


> I am using R version 2.12.2 (2011-2-25). I am a new user so your
> advice would be of great help.
>
> Best wishes,
> Joe
>
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