[Gusdev-gusdev] GenBank, Gene Ontology questions

[Chetna D. W. <ch...@ug...>]

Hi all,

It would be great if I can get insight into following:

1) GenBank

I am trying to load data from GenBank with the  command

ga GUS::Common::Plugin::GBParser --gbRel=133 
--file=/home/gusdev/GenBank/TcNCBIgenomic.gb

I am getting SQL Error: foreign  key violation for tables SRes.DbRef and 
DoTS.ExternalNASequence.

I wanted to know more about how to solve the dependencies in these 
tables.

In order to solve this dependency I might need the 
InsertDbRefAndDbRefNASequence.pm and thats not functional as of yet. I 
was wondering if its up and running.

2) GeneOntology

We have successfully  installed Taxonomy in the gus 3.0 database at this 
end. I need to know what version and files do I need to put all the 3 
ontologies in the database.  Also what are the dependencies in loading 
Gene Ontology in terms of data.

3) Following is the list of tables we have filled in to work with gus:
Core.Algorithm
Core.AlgorithmInvocation
Core.Userinfo
Core.Projectinfo
Core.Groupinfo
Core.Machine
SRes.Taxon
SRes.Taxonname
SRes.GeneticCode

I would be very happy to call you guys over phone (if possible) at a 
good time if you think that the answers are really long and complex to 
talk over email.

Hope to hear from you all,
Thanks,
Chetna