[Bioperl-l] Not picking up Dbxrefs EMBL records

[Hilmar Lapp]

Are you referring to references and their PMID? These you would find in 
the Reference table, which has a foreign key to dbxref, which would 
only store the PUBMED or MEDLINE ID (not both at this time). Can you 
given an example accession that's giving you grief?

	-hilmar

On Aug 8, 2005, at 1:17 AM, SG Edwards wrote:

> Hi folks,
>
> I have a BioSQL database (PostgreSQL 7.4.3, BioPerl 1.4, bioperl-db 
> 1.2) set up
> containing protein and gene data. However, when I load gene sequence 
> records
> (EMBL or Genbank) using:
>
> perl load_seqdatabase.pl -driver Pg -safe -lookup -dbname milk -dbuser 
> s0460205
> -dbpass password -format embl /home/s0460205/file_name.txt
>
> from bioperl-db it does not pick up any dbxrefs i.e. there is no 
> dbxref_id for
> MEDLINE etc.
>
> Has anyone else come across this rpoblem and is ther a fix?
>
> Cheers,
>
> Stephen
>
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-- 
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Hilmar Lapp                            email: lapp at gnf.org
GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
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