[Bioperl-l] how to load all genomes

Barry Moore barry.moore at genetics.utah.edu
Wed Nov 14 14:18:29 EST 2007


Denis,

You might be interested in this thread from a couple years ago.  I  
was having a similar problem, that I eventually resolved.   
Unfortunately the reason for the problem and the solution weren't  
entirely clear, but you may be able to glean some ideas from it.   
Also, you may have already done this, but I suggest searching the  
archives from this list because it seems like this comes up every now  
and then, so there may be other postings similar to the one I'm  
sending you that could help you.

http://www.bioperl.org/pipermail/bioperl-l/2005-January/018093.html

Finally, if you are still having problems, you'll want to include a  
few more details about your situation.  What DB are you using, have  
you preloaded taxonomy data etc. How fast/slow are your sequences  
loading?

Barry

On Nov 14, 2007, at 10:28 AM, Denis Reshetov wrote:

> Dear BioPerl-db Creators,
>
> I`m trying to load all genomes from NCBI ftp site
> to my BioSql database using common script load_seqdatabase.pl
>
> But it seems very slow. Let me know what is the better way to do it?
>
> Thank you very much,
>
> Denis.
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> Bioperl-l at lists.open-bio.org
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