[Biojava-l] biojava3 and blast xml parser

[Scooter Willis]

We did not migrate the blast xml parser from 1.8 to 3.0. Typically I
will load the XML as a DOM object and use xpath to query the desired
results. I have some code in the biojava3-genome module
(org.biojava3.genome.BlastXMLQuery) that could possibly provide a
solution for you depending on what you are trying to accomplish. Let
me know if you have specific requirements that could help motivate
formal blast XML->Java objects support in Biojava3.

Thanks

Scooter

2011/4/27 François Le Fèvre <flf.mib at gmail.com>:
> Dear all,
>
> I have just a difficulty: is there still a blast xml parser in the biojava
> 3.0-SNAPSHOT
> I am not able to find it...
>
> I have found
> http://www.biojava.org/docs/api1.8/org/biojava/bio/program/sax/blastxml/BlastXMLParser.html
> with a good tutorial here
> http://biojava.org/wiki/BioJava:CookBook:Blast:Echo
>
> but it seems to be part of biojava 1.8
>
> can you confirm me?
>
> Thanks
>
> Francois
>
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