[Bioperl-l] New Annotation interfaces! Mark/David/whoever - check it out!

Mark Wilkinson mwilkinson@gene.pbi.nrc.ca
Tue, 30 Oct 2001 15:28:14 -0600

Ewan Birney wrote:

> Well - two hours of British Rail has its benefits.

but not many...

>   - put in Controlled Vocab somehow - need to talk to the GO folks
> to check I do it right

I'll be interested in how you do this... are you planning to retrieve the vocab from
a server into the object (i.e. enforce a vocab)?  If so, you might convince Chris to
commit his GO perl-api into BioPerl!  ...hint hint Chris!!

> - deal/decide with updates as I am sure GenQuire will want to write
> back here (right guys??)

absolutely.  Speaking of which, Dave (may he rest in Novartis peace) and I will be
committing Genquire to the Bioinformatics.org public CVS as a **TRUE** open-source
project within a couple of days!  Just one more JohnHenry and it will finally be
commercial-license-free!!  It's still a bit broken since there were some other
priorities prior to Dave's move to California, but it is almost fully functional
again with a new-and-improved database schema and a plugins API!  It still has a
flat cartoony feature display though... which isn't very 'cool'...   ;-)

w.r.t. the annotation objects - I'm sorry I never got back to coding them.  Between
Genquire and my attempts to put the word "Professor" in front of my name I never got
back to it again after my initial burst of enthusiasm.  Still, It looks like you
have built a pretty solid foundation.  I can't imagine anything that can't be
derived from these... looks great!  As soon as my job-hunting settles down I will
get on and make Genquire compatable.

Let's hear it for B.R.!


"Speed is subsittute fo accurancy."

Dr. Mark Wilkinson
Bioinformatics Group
National Research Council of Canada
Plant Biotechnology Institute
110 Gymnasium Place
Saskatoon, SK