[Biojava-l] Blast and PDB

Thomas Down td2@sanger.ac.uk
Tue, 15 Aug 2000 17:16:48 +0100


I've just finished checking in the new Blast and PDB
parsing code submitted by Simon Brocklehurst, Tim Dilks,
Colin Hardman, and Stuart Johnston, all of Cambridge
Antibody Technology.  Take a look at the code in

(CVS users: note that I've created some extra directories,
so you will need to do `cvs update -d`)

Both parsers extract data from streams and fire SAX2
events representing an XML model of the data.  To see
this in action, there are a couple of utilities
in biojava-live/demos/nativeapps which print the XML
forms of the parsed data.  There is also an archive of example
files on the website:


For those who can't access BioJava by CVS, I'll try to put up
a new snapshot version including this code in the next day or so.

Thanks to Simon et al. for what looks like a killer feature,

One of the advantages of being disorderly is that one is
constantly making exciting discoveries.
                                       -- A. A. Milne