Re: [galaxy-user] biomart plugin

[Greg Von Kuster]

Hello Andrea,

Make a copy of the ~/tools/data_source/biomart.xml for your local biomart 
install, and change the action in the following tag to point to it.

inputs action=http://www.biomart.org/biomart/martview; check_values=false 
method=get target=_top

Then add your new biomart tool wrapper to your tool_conf.xml file and start up 
your Galaxy instance.

For details about adding a new tool, see 
https://bitbucket.org/galaxy/galaxy-central/wiki/AddToolTutorial.

Greg Von Kuster

On Mar 26, 2011, at 10:19 AM, Andrea Edwards wrote:

 Hello
 
 I have looked at the biomart plugin for Galaxy and this seems to allow access 
 to marts on the biomart central server.
 Is there anyway to use this plugin to access a biomart on my server if I 
 can't make my biomart available on the biomart central server.
 
 If not, would it be possible to achieve this with galaxy tools. I've heard of 
 galaxy tools but never made one so I don;t know what is involved.
 
 Failing that would i be able to use the biomart plugin to access my server if 
 I had a local installation of galaxy
 
 
 thanks
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Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu



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[galaxy-user] biomart plugin

[Andrea Edwards]

Hello

I have looked at the biomart plugin for Galaxy and this seems to allow 
access to marts on the biomart central server.
Is there anyway to use this plugin to access a biomart on my server if I 
can't make my biomart available on the biomart central server.


If not, would it be possible to achieve this with galaxy tools. I've 
heard of galaxy tools but never made one so I don;t know what is involved.


Failing that would i be able to use the biomart plugin to access my 
server if I had a local installation of galaxy



thanks
___
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using reply all in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

 http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

 http://lists.bx.psu.edu/