[Bioperl-l] loading sequence error bioseq

Hilmar Lapp hlapp at gmx.net
Tue Jan 29 16:31:47 EST 2008


This looks suspiciously like a data error. Can you please give the  
full command line. This should also show which format your sequences  
are in.

	-hilmar

On Jan 29, 2008, at 1:22 PM, snoze pa wrote:

> Dear User,
>
>  After successfully creating a database bioseqdb and loading  
> ncbi_taxonomy
> successfully I am getting following error message while loading  
> sequences
> into database.
>
> load_seqdatabase.pl -host localhost -dbname bioseqdb .....etc
>
> MSG: insert in Bio::DB::BioSQL::SeqFeatureAdaptor (driver) failed,  
> values
> were ("","31") FKs
> MSG: insert in Bio::DB::BioSQL::SeqFeatureAdaptor (driver) failed,  
> values
> were
> MSG: insert in Bio::DB::BioSQL::SeqAdaptor (driver) failed, values  
> were
>
> Column 'dbname' cannot be null
>
> STACK: /usr/local/bioperl-
> db-1.5.2_100/scripts/biosql/load_seqdatabase.pl:620
> -----------------------------------------------------------
>
>  at /usr/local/bioperl-db-1.5.2_100/scripts/biosql/ 
> load_seqdatabase.pl line
> 633
>
> Any Idea?
>
> Thanks in advance
> s
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-- 
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: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
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