[Bioclusters] rsync of NCBI formatted databases

[Warren Snelling]

Hello,

Some of you may be interested in a project we have to develop a genomic
agent system.  The system is intended to deal with data gathering,
formatting and version tracking issues, as well as automating some
routine analyses.  A more complete description of the project is in
Huhns et al.(2002, IEEE Internet Computing vol. 6, no. 5, pp. 88-91).  

The system uses java, jade (http://sharon.cselt.it/projects/jade/), and
jdbc for interaction with relational databases.  Source can be obtained
from the developers, Mike Huhns (huhns@engr.sc.edu) and Larry Stephens
(stephens@ece.sc.edu).  We will appreciate feedback from anyone who
tries it, and will welcome ideas to make this system more usable for
genomics research.

warren

> 
> Just checked out the bio-mirror.net site, what a great resource! If the 
> project needs another USA mirror I may be able to find a host in the 
> Boston area with good bandwidth and spare server+storage.
> 
> Relating to what Jeremy wrote...I also tend to write 'wget' scripts to 
> mirror bio data sources. This type of boilerplate stuff is one of those 
> 'why does everyone reinvent the wheel' sort of problems. Does anyone 
> have or know about a freely available data mirror + database formater & 
> version tracker that we could all sort of work on and adopt or improve?
> 
> Heck, even trading 'wget' scripts on this list may save people time & 
> effort.
> 
> -Chris
> 
> 
> 
> 
> Phillip Smith wrote:
> 
> >
> > On 2 Dec 2002, Jeremy Mann wrote:
> >
> >
> > >We are currently using a simple update script that uses wget to download
> > >the Formatted Databases for use with NCBI blast. Rather that continue
> > >with this script, I am curious if there is an rsync server or rsync
> > >mirror at NCBI?
> > >
> >
> >
> > We provide a mirror of this data, which can be retrieved via ftp, http,
> > and rsync.  See http://www.bio-mirror.net/ for details.
> >
> > -phillip
> >
> > ------------------------------------
> > Phillip Smith
> > Unix System Administrator
> > The Center for Genomics & Bioinformatics
> > Jordan Hall 153
> > Indiana University, Bloomington
> >
> >  Phone: 812-856-5081
> > E-mail: psmith@bio.indiana.edu
> > ------------------------------------
> >
> >
> >
> > _______________________________________________
> > Bioclusters maillist  -  Bioclusters@bioinformatics.org
> > https://bioinformatics.org/mailman/listinfo/bioclusters
> 
> 
> 
> -- 
> Chris Dagdigian, <dag@sonsorol.org>
> BioTeam Inc. - Independent Bio-IT & Informatics consulting
> Office: 617-666-6454, Mobile: 617-877-5498, Fax: 425-699-0193
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> 
> 
> _______________________________________________
> Bioclusters maillist  -  Bioclusters@bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters
-- 
Warren Snelling

USDA, ARS, US Meat Animal Research Center
PO Box 166                                 tel:  402-762-4252
Clay Center, Nebraska  69833-0166          fax:  402-762-4155
snelling@email.marc.usda.gov