[Biojava-l] Problem with blast file parser

[Marcel Huntemann]

As I said, I am using the code from
http://biojava.org/wiki/BioJava:CookBook:Blast:Parser.
I have a normal text file that was created by blast. I thought that the
given code converts the input stream from the file into SAX events.
Do I have to do another step, before I use the code of that example?

Cheers,
Marcel


Mark Schreiber wrote:
> Is this XML parsing or blast text output?
> 
> - Mark
> 
> On Sat, Jan 24, 2009 at 12:17 AM, Charles Imbusch <charles at imbusch.net
> <mailto:charles at imbusch.net>> wrote:
> 
>     Hello Marcel,
> 
>     I also do experience the problem that the parser is skipping
>     the even result numbers. I have not found a sufficient solution
>     for that, so I gave up on parsing on a blast result file containing
>     multiple results. Instead I splitted up the big fasta file into
>     serveral ones, so that I just get one result for one fasta file.
>     That works, even it's not the best solution for it.
> 
>     Let me know if you find another solution for that problem.
> 
>     Cheers,
>     Charles
> 
> 
>     _______________________________________________
>     Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
>     <mailto:Biojava-l at lists.open-bio.org>
>     http://lists.open-bio.org/mailman/listinfo/biojava-l
> 
>