[Gusdev-gusdev] LoadNRDB - Versioning

[Pablo N. M. <pa...@ug...>]

Hello all,
we have some questions on loading a new release of NR into a live
database. Maybe some of you have already addressed these issues. We
would appreciate any help.

1) How does GenBank release new versions of the NR database?
	- Whole DB downloads?
	- Updates/changes only?

2) Has anybody used the LoadNRDB GUS plug-in successfully with a FASTA
version of the NR DB obtained directly from NCBI? 
We have the version 1.22 of LoadNRDB GUS plug-in and we're having
difficulty using it to load the NR database. It crashes when it finds,
for instance, a header like this:
>gi|25506335|pir||B90058 conserve (...) 
So, do we need to fix all the supposedly incorrect headers? 

3) How are sequences updated in GUS? Is the whole DB version loaded each
time? Or only sequences whose accession/ids have changed?

4) How are analyses that were run from a previous db release version
affected? What about analyses performed on sequences that didn't change?

5) How can we determine what analyses stored in GUS are "stale" when a
new version of NRDB is released?

Thanks in advance
-- 
-----------------------------
Pablo N. Mendes
Research Scholar
Kissinger Lab
Department of Genetics
University of Georgia
C210 Life Sciences Bldg.
Athens, Georgia 30602
Phone:706 542-1447
E-mail: pa...@ug...