[Biojava-l] parsing tblastn results

[Charles Imbusch]

Thank you David and Richard for the quick replies.
I downloaded two files from 
http://bugzilla.open-bio.org/show_bug.cgi?id=2603
and tried to apply the patches. I suppose that's the way to get the modified
BlastSAXParser.java.

charlie at custodian:~/biojava-live_1.6$ patch -p0 < BlastSAXParser.java.patch
(Stripping trailing CRs from patch.)
patching file src/org/biojava/bio/program/sax/BlastSAXParser.java
Hunk #1 FAILED at 60.
Hunk #2 FAILED at 631.
Hunk #3 FAILED at 643.
Hunk #4 FAILED at 650.
4 out of 4 hunks FAILED -- saving rejects to file 
src/org/biojava/bio/program/sax/BlastSAXParser.java.rej

and similar for the other file

charlie at custodian:~/biojava-live_1.6$ patch -p0 < 
HitSectionSAXParser.java.patch
(Stripping trailing CRs from patch.)
patching file src/org/biojava/bio/program/sax/HitSectionSAXParser.java
Hunk #1 FAILED at 41.
Hunk #2 FAILED at 65.
Hunk #3 FAILED at 96.
Hunk #4 FAILED at 515.
Hunk #5 FAILED at 524.
5 out of 5 hunks FAILED -- saving rejects to file 
src/org/biojava/bio/program/sax/HitSectionSAXParser.java.rej

Obviously something went wrong, but I couldn't figure out what. I 
uploaded the rej files to
http://charles.imbusch.net/tmp/

Any hint is appreciated.

cheers,
  Charles