[Biojava-l] [proposal] GFF Parsing changes

[Thomas Down]

Hi...

Is anyone currently using the BioJava GFF (general feature format)
parsing code, found in the org.biojava.bio.program.gff package?

I've been doing some new stuff with with recently, and have
fixed a few minor bugs, but I'm also thinking of some API
changes:

  - Optionally allow a `location' argument to the parser.
  - Split GFFDocumentHandler into separate handlers for
    correctly parsed records and error conditions.
  - Add some proper exceptions for reporting problems
    in GFF parsing.

If you just use GFFEntrySets, the effect of these changes
should be very minor.  They will mean a little bit of
work (although generally not much) if you have a custom
GFFDocumentHandler.

Let me know if this is going to cause trouble, or if
you have any other suggestions.

Thomas.
-- 
He looked up with big brown eyes.  ``They're really only
tiny little A-bombs, honest.''
                                     -- David Brin.