[Bioperl-l] loading data to biosql tables

Sean Davis sdavis2 at mail.nih.gov
Fri Dec 9 10:56:14 EST 2005

On 12/9/05 10:10 AM, "Angshu Kar" <angshu96 at gmail.com> wrote:

> Hi Hilmar,
> In the load_seqdatabase.pl script could you please tell me where you are
> inserting the data into the db tables, so that I can try and modify that
> part to insert data only to the tables that I need ?


In general, that isn't going to be a fruitful exercise, as the code probably
isn't divided nicely into an "insert" (but Hilmar can comment directly).  I
would do as Hilmar suggests and instantiate the entire schema.  Only then
can you expect the tools for loading and querying the database to be useful.

If you want to do something differently, you are probably better off
starting with your own schema (or using BioSQL) and then writing your own
tools to load and query it.  However, doing so can be EXTREMELY challenging
for genomics data. 


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