[BioC] problems with GenomeGraphs

Steve Lianoglou mailinglist.honeypot at gmail.com
Tue Aug 5 00:05:45 CEST 2008

On Aug 4, 2008, at 5:50 PM, Steve Lianoglou wrote:

> Hi,
> On Aug 4, 2008, at 2:42 PM, steffen at stat.berkeley.edu wrote:
>> Hi Raphael,
>> I week ago there was an new release of Ensembl and a few of  
>> attributes in
>> Ensembl changed names.  These changes have been fixed in the  
>> GenomeGraphs
>> package available here:
>> http://bioconductor.org/packages/2.3/bioc/html/GenomeGraphs.html
> What's the best way to install this, assuming we're using R 2.7.x  
> and, therefore, pulling from the BioC 2.2 repos (by default)?
> Do we have to update to R 2.8-devel, or should we just try to  
> download the binary from that webpage and install manually?

To answer my own question ... I just downloaded the source from the  
BioC 2.3 repo and did a round of

$ R CMD build GenomeGraphs
$ R CMD install GenomeGraphs_1.1.2.tar.gz

And things seem to be working so far in my R 2.7.1/BioC 2.2  
environment (I already had the dependencies installed).

Steve Lianoglou
Graduate Student: Physiology, Biophysics and Systems Biology
Weill Cornell Medical College of Cornell University


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