Bioperl-ANNOUNCE Re: question:bioperl remote blast error

Wed, 12 Jan 2000 03:41:51 -0800 (PST)

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James,

I've just uploaded a patch for using the run_blast_remote.pl script on 
the bio.perl.org ftp site:

ftp://bio.perl.org/pub/sac/blast/Bioperl-run-blast-patch.tar.gz 
or
ftp://bio.perl.org/pub/sac/blast/Bioperl-run-blast-patch.zip

This permits BLAST analysis on the NCBI server. It's not an ideal
solution, but will do for now. Check out the README in this archive
for details.  

The remote BLASTing script cannot be configured to use an alternative
site, but this could be added without too much trouble.  If you need
to do this now, you can edit the server URL used in the Webblast.pm
module, but any alternative site must be compatible with the NCBI web
form.

Cheers,
Steve
--
Steve A. Chervitz   
sac@neomorphic.com   

James Tisdall writes:
 > Hi,
 >      using
 > ./run_blast_remote.pl -prog blastx -db nr seq2.fasta
 > I get an error file jimseq.blastx2.nr.temp.html with contents
 > 
 > <HEAD>
 > <META HTTP-EQUIV=Refresh
 > CONTENT=4;URL=http://www.ncbi.nlm.nih.gov/blast/blast.cgi>
 > </HEAD>
 > Forwarding your request to the new system
 > 
 > 
 > Couldn't find a mention of this on mail list archives or docs.
 > Apparently NCBI moved their service.  Is there a way to configure
 > bioperl to do blast remotely at ncbi or elsewhere?
 > 
 > Many thanks,
 > 
 > Jim
 > 
 > 
 > -- 
 > ----------------------------------------------------------------------
 > James D. Tisdall                Phone: (215) 728-3660
 > The Fox Chase Cancer Center          FAX:   (215) 728-2513
 > 7701 Burholme Avenue                 Email: JD_Tisdall@fccc.edu
 > Philadelphia, Pennsylvania 19111 USA
 > 

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