Hi Simon,
I've found a bug in the Blast2HTMLHandler code. In the hit summary
section that it produces, the score and expect values are shifted by 1
result. Thus, the first hit has the score & expect from the 2nd and so on.
I fixed it as follows (not sure if this is correct way, but it seems to
work):
- removed the else part of the if statement at lines 173-178: (in
startElement method)
} else {
oRenderer.writeCurrentSummary( oHitSummary );
}
- added to endElement method above line 273:
} else if ( poElementName.equals( "HitSummary" ) ) {
oRenderer.writeCurrentSummary( oHitSummary );
Regards,
Simon Foote
--
Bioinformatics Specialist
Institute for Biological Sciences
National Research Council of Canada
[T] 613-991-4342 [F] 613-952-9092
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