Java: Knowledge-Base not via file

Hello,

I'm building an Java-application using the Java-Interface of Eclipse.
I want to setup a knowledge-base not via file as it usually happens,
because I am going to create the base dynamically.

In Eclipse (and other Prolog Systems) you can setup a knowledge base
like that, too:
Type "compile(user)." or "[user]." in console and enter the rules (...).
The input can be stopped with CTRL+D or through entering the
atom "end_of_file". 

My problem: How is it possible, to do this, using the Java-Interface
of Eclipse? 
The method compile(java.io.File) in EclipseEngine doesn't work, as it
needs a java.io.File as Parameter. Building an "CompoundTermImpl"
of "compile(user)" seems not to work, too?

Has anyone experiences with Java Interface of Eclipse and can help me?
Thank you!

Kind Regards,
Sebastian