I am using RFT 6 - Java Scripting

I have a web application which will generate a window application (Excel file), in the generated Excel file I have to do some modifications.
I have scripts to manipulate web application and window application seperately.
Say - web.java, excel.java.
But i don't know how to integrate these two scripts in a single run.

Am thinking of some thing, clarify me if that possible !

I can call these two scrits from a main script.
Is there any way to configure application throug coding ? so that i can first run the code for web configuration, then manipulating web actions, then by running the window configuration code i can manipulate the Window actions. How much this is feasible... ?