[Biojava-l] Re: [BioXML-dev] GAME XML

[Bradley Marshall]

Hey,

Thanks for the heads-up, Chris.  I guess I should
watch the biojava boards ;)

--- Chris Mungall <cjm@fruitfly.bdgp.berkeley.edu>
wrote:
> Crossposting to bioxml from biojava...
>
> On Thu, 4 May 2000 biojava-l-admin@biojava.org
> wrote:
>
> > Message: 2
> > Date: Thu, 04 May 2000 11:03:42 +0100
> > From: Matthew Pocock <mrp@sanger.ac.uk>
> > Organization: The Sanger Center
> > To: "biojava-l@biojava.org"
> <biojava-l@biojava.org>
> > Subject: [Biojava-l] Game XML
> >
> > Dear all,
> >
> > Is GameXML widely used? Would it be good to add a
> game read/write module
> > to org.biojava.bio.seq.io?
>
> We use it extensively within FlyBase/BDGP. We also
> used it for
> transferring the annotated drosophila genome data
> between
> BDGP/Celera/genbank.
>
> A biojava parser would be great - we already have a
> parser for our own
> java objects, which you're welcome to look at.
>
> I'd say hold off for a short while - on bioxml-dev
> we're discussing some
> changes to GAME since some of the tags were deemed a
> little confusing for
> some people at first.

Yeah,

   We'd really like to see GAME grow in usage.  I'm
building a parser for bioperl.  (I may just steal most
of Chris's code from the flybase project - we'll see).

The current state of GAME is still in a transitory
phase, though.  I just posted my proposal for a newer,
simplified GAME version.  Some of the changes were
ideas from Suzi and Chris and Erwin (the original
designers) and some are my own, so it remains to be
seen what their reactions will be.  Of course Chris is
the one who writes the parsers for them - so he may be
the most important one.

At any rate, check out the new/old GAMEs.  They're at
http://www.bioxml.org/Projects/game/ .

Brad


>
> > Matthew
> >
> > --
> > Joon: You're out of your tree
> > Sam:  It wasn't my tree
>
>
------------------------------------------------------------------
> Chris Mungall            	Berkeley Drosophila Genome
> Project
> cjm@fruitfly.berkeley.edu	http://www.fruitfly.org
>
> > --__--__--
> >
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