[Biojava-l] How to launch a blast on ncbi server via biojava?

[bertrand beckert]

Thanks for this code...
but this piece is good if you want to retrieve a specific sequence with a
particular ID...
What I want to do, is to submit a blast and then retrieve the result and
then parse the result in oder to know what are the ID....
I already found in the NCBI site (
http://users.encs.concordia.ca/~f_kohant/ncbiblast/) a java interface but
the documentation is not so nice....and the link with biojava is quit
obscure for me....

could you help me please

thanks for all

Bertrand






2007/9/4, Dickson Guedes <guedes at pmf.sc.gov.br>:
>
> Hi Bertrand,
>
>
> You may use a code like this:
>
>
> try {
>         NCBISequenceDB impSequence = new NCBISequenceDB();
>
>         Sequence mySequence = impSequence.getSequence("156447465");
>
>         System.out.print(
>              mySequence.getAnnotation()
>                            .getProperty("description")
>                            .toString()
>         );
> } catch (BioException e) {
>         System.out.println(e.getMessage());
> }
>
>
> []s
> Guedes
>
> -----Mensagem original-----
> De: biojava-l-bounces at lists.open-bio.org
> [mailto:biojava-l-bounces at lists.open-bio.org] Em nome de bertrand beckert
> Enviada em: terça-feira, 4 de setembro de 2007 06:10
> Para: biojava-l at lists.open-bio.org
> Assunto: [Biojava-l] How to launch a blast on ncbi server via biojava?
>
> Hi,
>
> Sorry for this silly question, but I would like to know if it is possible
> to
> launch some blast via biojava on the ncbi server for an example and also
> to
> retrieve the result as it is possible in in the bioperl project.
> I found some information in the biojava cookbook  as how to parse some
> blast
> file result but I didn't find any information/example for launch blast on
> the ncbi server....
> Could you help me please
>
> Thanks
>
> Bertrand
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>
>
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-- 
Bertrand BECKERT
PhD student
IBMC - UPR 9002 du CNRS - ARN
15, rue Rene Descartes
F-67084 STRASBOURG Cedex

b.beckert at ibmc.u-strasbg.fr
bertrand.beckert at gmail.com