[Bioc-sig-seq] Genominator

[Kasper Daniel Hansen]

Hi Michael

As Seth and Patrick has said: you need to upgrade your R.  For Genominator we have recently added some additional functionality that I highly recommend - especially functionality for easier import of ShortReads into a database.  So I would also suggest checking out the devel version.

Kasper

On Dec 22, 2009, at 17:44 PM, Michael Muratet wrote:

> Greetings
> 
> I am trying to install Genominator (and GenomeGraphs). I tried the usual:
> 
> source("http://bioconductor.org/biocLite.R")
> biocLite("Genominator")
> and it returned:
> Running biocinstall version 2.3.14 with R version 2.8.0 Your version of R requires version 2.3 of Bioconductor.
> Warning message: package ‘Genominator’ is not available
> So I tried downloading the tarball from the website and R CMD INSTALL Genominator_1.0.2.tar.gz
> and got:
> {loading and cranking output} then
> ERROR: Environment (text enclosed in {}) found in \title{...}.
> The title must be plain text! ERROR: building help failed for package 'Genominator' ** Removing '/Library/Frameworks/R.framework/Resources/library/Genominator'
> I think maybe there's an issue with the package, but I'm willing to accept I fouled up somewhere. Anybody have any suggestions?
> sysinfo:
> sessionInfo() R version 2.8.0 (2008-10-20) i386-apple-darwin8.11.1 locale: en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_2.8.0
> Thanks
> Mike
> 
> Michael Muratet, Ph.D.
> Senior Scientist
> HudsonAlpha Institute for Biotechnology
> mmuratet at hudsonalpha.org
> (256) 327-0473 (p)
> (256) 327-0966 (f)
> 
> Room 4005
> 601 Genome Way
> Huntsville, Alabama 35806
> 
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