I'm not quite sure what you mean by a "code file", but if you
mean using the <configfile> tag, here's an example:

https://github.com/peterjc/galaxy_mira/blob/master/tools/mira4_0/mira4_de_novo.xml

I am using a Cheetah syntax for loop to access each entry
in a repeat parameter.

Peter

On Thu, Sep 1, 2016 at 12:58 PM, Katherine Beaulieu
<katherine.beaulieu...@gmail.com> wrote:
> Hello Galaxy Community,
> I was wondering if anyone had ever come across a situation where they have
> had to pass the contents of a repeat parameter to a code file in a Galaxy
> tool config? Is there any way to do this?
> Katherine
>
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