[GUSDEV] Re: ISF errors list

[Aaron J. M. <am...@pc...>]

On Feb 17, 2006, at 6:58 PM, davila wrote:

> 2. MSG: operator "gap" unrecognized by parser
> An gap.tar.gz file was created ana annexed containing several GIs  
> associated to this error.

This is a known (old) BioPerl error; GenBank has introduced/allowed a  
feature location operation called "gap()" (like "join()" or  
"complement()") that is not valid EMBL/GenBank/DDBJ feature-table  
syntax.  See:

   http://bugzilla.open-bio.org/show_bug.cgi?id=1319

This is fixed in BioPerl 1.5.1, I believe, and maybe even in 1.4

-Aaron

--
Aaron J. Mackey, Ph.D.
Project Manager, ApiDB Bioinformatics Resource Center
Penn Genomics Institute, University of Pennsylvania
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