Bioperl: How to send Blast request to NCBI over the web??

[Steve Chervitz]

To use webblast or Webblast.pm with a local machine, you would have to
(1) have a Blast server on your machine that can accept http requests,
and (2) modify the server URL in webblast/Webblast.pm to point to the
proper cgi on your local Blast server. Also, this cgi would have to
accept the same parameters as the NCBI server.

If you don't want to launch your Blasts via an http server, you're on
your own for now. The bioperl distribution has a module designed for
this sort of thing called LocalBlast.pm, but is just a stub at
present.

SteveC
sac@neomorphic.com

PS. The modules for running Blasts inthe bioperl distribution are in
Bio::Tools::Blast::Run::.


Dong Li (Alex) writes:
 > Hello, Mr. Park,
 > 
 > You may want to use webblast. You can find a modulized old version of    
 > webblast at bio.perl.org, or use the standalone, newer version at
 > http://www.genet.sickkids.on.ca/bioinfo_resourses/software.html.
 > The latter one is not the lastest version but it should meet your need.
 > 
 > Regards,
 > 
 > Alex.
 > 
 > Email: ali@genet.sickkids.on.ca   URL: http://www.globalserve.net/~lidong/
 > 
 > 
 > J. H. Park writes:
 >  > Hi,
 >  > 
 >  > Can anybody tell me (or give me perl/cgi codes)
 >  > to send requests Blast search to run NCBI
 >  > blast over updated NCBI db?
 >  > 
 >  > I do not want to use their website but run
 >  > a script in my machine with a sequence as
 >  > it takes a lot of time using the web interface.

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