Re: [galaxy-dev] Coupling the output of two tools

On Fri, Sep 28, 2012 at 11:28 PM, Robert Chase rerpc@channing.harvard.edu wrote:

Hello,

We added batch gfPcr as a tool in galaxy by writing a wrapper. We wrote another tool in python to modify the output of this tool (we increment the starts of the intervals by 1 to make the starting intervals 1 based) and wrote a wrapper for this other tool. Is is possible to couple these tools together as a single tool by writing a xml file?

-Rob

Yes - you might be able to do it just as the one xml file with some command line piping to link the two tools, or perhaps pass two commands to the shell.

Alternatively having the new combined XML use a simple wrapper script calling the two existing tools might be easier.

Peter