[Bioperl-l] found the error tarp in load_seqdatabase.pl

Chris Fields cjfields at uiuc.edu
Wed Jan 30 15:04:18 EST 2008


Sounds like a bug in the GenBank parser.  Could you post a bug report  
with an example sequence record and your script?

http://bugzilla.open-bio.org/

chris

On Jan 30, 2008, at 1:30 PM, snoze pa wrote:

> Hi Hilmar,
>
> After spending lots of time i figure out the error. I am able to load
> sequences if the sequences do not have following entry
>
> xrefs (non-sequence databases):
>
> If the Genbank sequence have this entry then script  
> load_seqdatabase.pl is
> crashing. I try it in couple of sequences and found it is the  
> culprit line
> genbank format.  But this line is important as it contain lots of
> information... so I am wondering how to solve this problem
>
> Any help?
>
> Thanks in advance
> s
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign





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