[Bioclusters] standalone blast server problem

Khan, Arshad bioclusters@bioinformatics.org
Thu, 27 Mar 2003 10:35:16 -0000


I had the same problem recently, download the latest blastserver from ncbi
ftp://ftp.ncbi.nih.gov/blast/server/wwwblast_Feb.10.2003/ and it ought to
work. There was a limit to the total length of databases names you could add
in blast.rc in versions prioir to Jun 2002. If you find that the problem
persists than  have multiple entries of the blast program in blast.rc ie.
add blastp newdata on another line. Hope this helps. 

Arshad Khan
Pathogenesis and genomics unit
Division of Immunity & Infection
Medical School
University of Birmingham
Edgbaston, B15 2TT

-----Original Message-----
From: yuyu.bai@syngenta.com [mailto:yuyu.bai@syngenta.com]
Sent: 26 March 2003 20:41
To: bioclusters@bioinformatics.org
Subject: [Bioclusters] standalone blast server problem

We downloaded a standalone blast web server from NCBI website last year.
It has been working fine until very recently. A few new datasets with long
were added into the directory where we have all the blastable datasets.
After that, blastn
works for some datasets and all other types of blast search don't work. If I
remove these long-name
datasets, everything would work. There are no strange characters in these
names except 
a few have '+' sign in the name. The problem doesn't go away if I only
remove the ones with '+' sign.
These long-name datasets themselves work ok for blastn search. The problem
is that their existence interfere 
with normal function of other datasets. 
If you know the cause of this problem. Please help, many thanks.

 Yu-yu Bai
 Bioinformatics Specialist
 Syngenta Biotechnology, Inc.
 3054 Cornwallis Road
 Research Triangle Park, NC 27709
 Phone: (919) 765-5102
 Fax: (919) 541-8610

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