In my custom (java) component, I would like to put a document on a refinery queue so it gets picked up by the IBR?
Is this possible and if so, can some provide me with an example?
Check this service: http://docs.oracle.com/cd/E21764_01/doc.1111/e11011/c05_core.htm#CSSRG2306
It allows you to resubmit an item for conversion. You can call this service from Java code, have a look in the HowToComponents for a Java example of how to call a service (I believe it should be some exemplification in there).