[Biojava-dev] BioJava code repository

[Andy Maule]

Thanks Sylvain,

That agrees with the last message I got from Richard Holland, it clears up
the confusion.

Andy

-----Original Message-----
From: Sylvain Foisy [mailto:sylvain.foisy at bioneq.qc.ca] 
Sent: 23 March 2006 14:44
To: Andy Maule
Cc: biojava-dev at lists.open-bio.org
Subject: Re: [Biojava-dev] BioJava code repository


Hi,

The Ensembl access libraries found in CVS are way old. Thomas Down, the
original creator, has put together a new version that can be accessed
through svn at the following location:

http://www.derkholm.net/svn/repos/biojava-ensembl/trunk

It works with current Ensembl schemas and I know that Thomas still does
development on it.

Hope this helps

Best regards

Sylvain


On 3/23/06 7:50 AM, "[NAME]" <[ADDRESS]> wrote:

> Hi,
> 
> I'm looking for java applications that use Ensembl for a research 
> project. In particular I'm interested in seeing how applications have 
> been changed in response to changes in the schema of Ensembl. So I 
> need to look at the source code repositories, and I've been looking at 
> the biojava CVS.
> 
> For those who are interested the project involves predicting the 
> impact of database schema changes on applications. I'm going to use 
> the change history of the Ensembl schema to find an interesting schema 
> change(s) that will affect the application. I'm then going to run a 
> tool over the application to see if I can effectivley predict what 
> needs to be changed. I'm then going to compare the predicted changes 
> with the actual changes, to see if my analysis was correct. I'd be 
> more than happy to explain the project further if anyone would like to 
> know more.
> 
> As far as I can see Biojava is still using the schema for version 10 
> as shown in org.ensembl.db.sql.SQLDatabaseAdaptor10. This is only from 
> the CVS repository though.
> 
> Someone on the Ensembl mailing list pointed me to 
> http://www.derkholm.net/svn/repos and the dazzle project. Could anyone 
> fill me in on whether this repository is the latest version, and is 
> there someway I could access via subversion directly?
> 
> Also where can I now get information about Dazzle?
> 
> Thanks
> 
> Andy Maule
> 
> 
> _______________________________________________
> biojava-dev mailing list
> biojava-dev at lists.open-bio.org 
> http://lists.open-bio.org/mailman/listinfo/biojava-dev
> 

==================================================================
Sylvain Foisy, Ph. D.
Directeur - operations / Project Manager
BioneQ - Reseau quebecois de bio-informatique
U. de Montreal / Genome-Quebec

Adresse postale:

Departement de biochimie
Pavillon principal
2900, boul. Édouard-Montpetit
Montréal (Québec) H3T 1J4

Tel: (514) 343-6111 x.2545
Fax: (514) 343-7759
Courriel: sylvain.foisy at bioneq.qc.ca
==================================================================