[BioSQL-l] error with load_ontology

[Peter]

On Thu, Aug 27, 2009 at 8:51 AM, Song Haili wrote:

> --------------------- WARNING ---------------------
> MSG: failed to store term synonym (Bio::DB::BioSQL::TermAdaptor) with values (alternating UDP-alpha-N-acetyl-D-glucosamine:beta-D-glucuronosyl-(1->3)-nascent hyaluronan 4-N-acetyl-beta-D-glucosaminyltransferase and UDP-alpha-D-glucuronate:N-acetyl-beta-D-glucosaminyl-(1->4)-nascent hyaluronan 3-beta-D-glucuronosyltransferase activity EXACT EC:2.4.1.212) (FK 20401 to Bio::Ontology::OBOterm):
> ERROR:  value too long for type character varying(255)
> ---------------------------------------------------

Extending the relevant field in the schema might be one solution...

> I am using biosql-1.0.0 downloaded directly from
> http://www.biosql.org/wiki/Downloads without any changes.
> So I am not sure if the RULEs have been removed. By the
> way, before I met the above error, I was able to use the script
> load_seqdatabase.pl to load swissprot data with many warnings.

BioSQL 1.0.0 is out of date, the latest release is 1.0.1
Was that a typo?

Peter