[Biojava-l] Massaging multi-query BLAST XML output...

[Michael Heuer]

A rather complex example using the sf StAX is at

> http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/vocabulary/vocabulary-sandbox/src/java/vocabulary/simple/SimpleVocabularyMLReader.java

   michael


On Fri, 11 Jul 2003, Michael Heuer wrote:
>
> On Fri, 11 Jul 2003, Matthew Pocock wrote:
>
> > > Also, I'm not really sure how to go about using the StAX stuff.
> >
> > Are the biojava and source-forge StAX APIs synchronized now? Anybody
> > know? Perhaps we should write a simple StAX tutorial. I'll see if I get
> > any time in the next week.
>
> The biojava and sourceforge StAX APIs are not in sync, due to all of the
> dependent code in biojava.  There are examples of how to use each of the
> handlers, with lazy id mapping, in the javadoc of the sourceforge
> version.
>
> Maybe a good plan would be to
>
> 1) move the sf version to a new package name
> 2) create another PRE_I'm_about_to_screw_things_up tag/branch on HEAD
> 3) refactor biojava classes to use the sf version (involves updating
> package, swapping StAXDelegationContext for DelegationManager, and
> introducing lazy id mapping where helpful)
>
> A last TODO would be to update SAX2StAXAdaptor to work with the newer XML
> APIs.
>
> I'm willing to help where necessary.
>
>    michael
>
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