[Biojava-dev] RE: blast version support

[Schreiber, Mark]

Hi -

There is a method called setModeLazy() in the SaxLikeBlastParser, it
doesn't actually seem to work though. Can someone else on the list
confirm it's not just me? James?

One way to get around it is to change the blast version to a supported
version number. If you do this it's a good idea to check a few by eye as
Blast output changes subtly between versions and the parser may not work
properly.

- Mark


> -----Original Message-----
> From: Staats, Brian (NIH/NCI) [mailto:staatsb@mail.nih.gov] 
> Sent: Friday, 17 January 2003 7:51 a.m.
> To: Schreiber, Mark
> Subject: RE: blast version support
> 
> 
> I should of added that I have tried your examples in your 
> "cookbook" on BLAST parsing and I am not able to get anywhere 
> with the code.  I still get errors of unsupported blastn version.
> 
> Thanks again.
> 
> >  -----Original Message-----
> > From: 	Staats, Brian (NIH/NCI)  
> > Sent:	Thursday, January 16, 2003 1:46 PM
> > To:	'mark.schreiber@agresearch.co.nz'
> > Subject:	blast version support
> > 
> > Did you ever obtain a solution to parsing blastn files with 
> > unsupported version numbers with BioJava?  Your help is greatly 
> > appreciated.
> > 
> > Thank you
> > 
> > Brian Staats
> > Bioinformatics Programmer Analyst
> > NIH/NCI/Core Genotyping Facility
> > staatsb@mail.nih.gov
> > 301.435.7617(V)
> > 301.480.2235 (F)
> 
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