[Biopython-dev] [Bug 2390] Error importing Swiss Prot in BioSQL

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Tue Nov 6 08:59:31 UTC 2007


------- Comment #11 from biopython-bugzilla at maubp.freeserve.co.uk  2007-11-06 03:59 EST -------
> Now, I've checked the uploading problem with the BioSQL database and it
> seems to me that It's getting stuck right at the beginning of the import
> with this sql query : 
> INSERT INTO biodatabase (name, authority, description)
> VALUES ('Swiss', NULL, NULL)

Do you know how to check the table schema, and see if authority and description
can be left empty/NULL?

I'm not sure what "authority" should be in this context, but it does strike me
as odd that the description is NULL - that could be a sequence file parsing
issue.  Does this happen for all files you've tried - what about a GenBank

Configure bugmail: http://bugzilla.open-bio.org/userprefs.cgi?tab=email
------- You are receiving this mail because: -------
You are the assignee for the bug, or are watching the assignee.

More information about the Biopython-dev mailing list