[DAS] Status of Trellis/Ivy and DAS1 to DAS2 proxying

[Andy Jenkinson]

What does das1->das2 mean by the way, Jim? a client component to make das1 sources look like das2, server component to do same, or vice versa?

On 4 Feb 2011, at 15:19, Gregg Helt wrote:

> The core genomancer code is pretty stable, most of the recent work is
> in plugins (and some work in the core to allow more extensive
> plugins).
> 
> You should be able to get a working DAS1-->DAS2 proxy running from
> the current head of the Trellis SVN repository -- you would just need
> to add a web.xml config file with servlet parameters to get it going in a
> servlet container like Tomcat, or alternatively run the built-in Jetty server
> (ExampleJettyDas2Server) and edit servlet parameters directly in code.
> 
> But if the intent is to load DAS 1.x data into IGB, I don't think you
> need to use Trellis.  Th latest IGB (6.4.1 loaded via WebStart)
> already supports DAS 1.5 access.  In the "Data Access" tab, under
> "Choose Data Sources and Data Sets" section click the "Configure"
> button.  This brings up a window with a "Data Sources" tab, and in
> that tab you can click the "Add" button to bring up a dialog that lets
> you select "DAS" for the data source type, and enter the URL for a DAS
> server.  This worked fine for loading data from the UCSC DAS 1.5
> server -- I haven't tried accessing data from any other DAS servers
> recently.
> 
> I'm forwarding to the genoviz-devel list for IGB developments and
> discussion, to see if anyone currently working on IGB can add any more
> info.
> 
> On Tue, Feb 1, 2011 at 7:51 AM, Jim Procter
> <jprocter at compbio.dundee.ac.uk> wrote:
>> 
>> Hi all (but Gregg in particular!)
>> 
>> I was wondering whether the DAS1 to DAS2 proxy component of Trellis/Ivy
>> in the Genomancer project (http://code.google.com/p/genomancer/) is
>> stable enough to use. We'd like to set up an in house DAS1->2 proxy and
>> it looks like there's a moderate amount of commit activity in the
>> project at the moment, making me a little nervous about attempting to
>> use the code in a production(ish) setting.
>> 
>> many thanks in advance,
>> Jim.
>> 
>> --
>> -------------------------------------------------------------------
>> J. B. Procter  (JALVIEW/ENFIN)  Barton Bioinformatics Research Group
>> Phone/Fax:+44(0)1382 388734/345764  http://www.compbio.dundee.ac.uk
>> The University of Dundee is a Scottish Registered Charity, No. SC015096.
>> 
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