[Bioperl-l] Remote Blast question.

[Jason Stajich]

We have a module that will do this - see Bio::Tools::Run::RemoteBlast.

Bio::Tools::Blast will not contain remote blast code in the future and
may not exist in future bioperl releases.  We have split this
functionality into a separate module.  It is not part of the bioperl 0.7
release but you can get it from the CVS repository or in subsequent
bioperl releases.

Our CVSweb link from http://bio.perl.org can point you to the module code.

On Mon, 28 May 2001, Mark Hoebeke wrote:

> 
> Hi all,
> 
> needing to perform some remote Blasts, I looked at the Bio::Tools::Blast
> documentation (and, the run_blast_remote.pl and retrieve_blast.pl example
> scripts). It seems, the remote execution module is unable to retrieve any
> Blast result, or even, achieve correct remote execution of the Blast
> query. I thought I read somewhere that this module is no longer actively
> maintained, and that the BPLite module was to be used to analyse Blast
> reports.
> 
> Does this mean that managing remote execution is doomed due to too
> frequent changes in the Blast query format ?
> Or, is anyone working on the QBlast URL API, to keep this functionality in
> bioperl ?
> 
> Of course, it is possible (probable ?) that I overlooked some part
> of the Bio modules supporting remote execution.
> 
> Thanks for any comments/clues.
> 
> Mark
> 
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Jason Stajich
jason@chg.mc.duke.edu
Center for Human Genetics
Duke University Medical Center 
http://www.chg.duke.edu/