[DAS] System requirements

[Tony Cox]

On Tue, 4 Dec 2001, Ewan Birney wrote:

+>On Tue, 4 Dec 2001, Todd Taylor wrote:
+>
+>> Hello,
+>> 
+>> We are thinking about setting up a DAS server at our institute here in
+>> Japan.
+>
+>
+>Great!

good news.

+>
+>> 
+>> Can anyone give us some recommendations as for the installation system
+>> requirements? What kind of system (OS, memory, hard disk, cpu) are
+>> others running it on?

we run our public server on an alphaserver 500 with 512MB memory and 36GB of
local disk. Not the newest of mach9ines but it copes OK.

+>
+>People run it on standard linux boxes. I would have (ideally) a separate
+>machine but it could be just a beefy linux box, probably outside your
+>firewall with the database you will be using and apache (and of course,
+>well locked down if it is outside your firewall with no nfs mounts to
+>disks inside your firewall)
+>
+>
+>> 
+>> And, can anyone explain the difference between the Dazzle server and
+>> LDAS?
+>> 
+>
+>Dazzle - is BioJava based

dazzle is a servlet implementation of the DAS protocol that runs under the
Jakarta Tomcat server. It can server DAS data out of different backends using a
plugin system (ones for mysql/JDBC, GFF flatfiles and simple sequence
features/mysql exist at the moment)

Setting this up is very simple, Tomcat comes as a binary distribution and the
dazzle servlet is a CVS or binary download. There is a dazzle install/setup
guide on the Ensembl website
(http://www.ensembl.org/Docs/das_server_v1.0.pdf).

+>
+>LDAS - is BioPerl based

based on perl, mod_perl and apache as the server platform. Oriented to serving
GFF-based sequence data from a backend mysql database. The LDAS system comes
with losts of scripts to create and upload data into databases. It looks very
nice although I havn't actually run it myself (yet!).

As for recommendations it depends on the complexity of your data.....dazzle
probably has more scope for extended serving/scaling, LDAS may score on
installation and component/code familiarity. YMMV.

hope this helps

regards

Tony

+>
+>
+>Both need a database backend, and in both cases they work with mysql.
+>
+>The database backends are very simple (unlike, say, the beast which is
+>Ensembl)
+>
+>
+>
+>
+>> I tried to find the answers to the above on the web pages and in the
+>> archives with little luck, maybe looking in the wrong place....
+>> 
+>> I would really appreciate your advice/suggestions.
+>> 
+>> Sincerely,
+>> 
+>> Todd Taylor
+>> 
+>> 
+>> *********************************
+>> Human Genome Research Group
+>> RIKEN Genomic Sciences Center
+>> 1-7-22 Suehiro-cho, Tsurumi-ku
+>> Yokohama, Kanagawa 230-0045 Japan
+>> 
+>> Tel: +81 (45) 503-9285/9175
+>> Fax: +81 (45) 503-9178/9176
+>> E-mail: taylor@gsc.riken.go.jp
+>> http://hgp.gsc.riken.go.jp/
+>> *********************************
+>>  
+>> 
+>> _______________________________________________
+>> DAS mailing list
+>> DAS@biodas.org
+>> http://biodas.org/mailman/listinfo/das
+>> 
+>
+>-----------------------------------------------------------------
+>Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
+><birney@ebi.ac.uk>. 
+>-----------------------------------------------------------------
+>
+>_______________________________________________
+>DAS mailing list
+>DAS@biodas.org
+>http://biodas.org/mailman/listinfo/das
+>

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Tony Cox			Email:avc@sanger.ac.uk
Sanger Institute		WWW:www.sanger.ac.uk
Wellcome Trust Genome Campus	Webmaster
Hinxton				Tel: +44 1223 834244
Cambs. CB10 1SA			Fax: +44 1223 494919
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