Hi Paul,

It seems that you probably did not use the Emboss tools in your local Galaxy 
instance before (maybe you have a new instance).  If this is the case, you can 
install the emboss_datatypes repository and the emboss_5 repository from the 
main Galaxy tool shed using the Admin UI features on your local galaxy 
instance.  See the following sections of the tool shed wiki for details.

http://wiki.g2.bx.psu.edu/Tool%20Shed#Automatic_installation_of_Galaxy_tool_shed_repository_tools_into_a_local_Galaxy_instance

http://wiki.g2.bx.psu.edu/Tool%20Shed#Automatic_installation_of_Galaxy_tool_shed_repository_data_types_into_a_local_Galaxy_instance

Greg Von Kuster


On Sep 13, 2012, at 4:46 PM, Paul Tanger wrote:

> Hi,
> 
> I'm trying to enable all the emboss tools on a local galaxy install.
> I found this tidbit (below) which I thought might help, but when I
> look at the tool_conf.xml, I don't see a list of emboss tools to
> uncomment.
> What should I try next?
> 
> 
> Kelly Vincent kpvincent at bx.psu.edu
> Fri Jan 14 11:26:37 EST 2011
> Previous message: [galaxy-dev] Restricted user builds
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> Rob,
> 
> When you start the Galaxy server, it looks in tool_conf.xml for which
> tools to load. Note that functional tests use tool_conf.xml.sample,
> and we leave the EMBOSS tools commented out in that file, so your
> tool_conf.xml file will still have them commented out if you haven't
> changed that. Uncomment the relevant lines and the EMBOSS tools should
> show up. After making changes to tool_conf.xml, you'll have to restart
> the server.
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