BIM Extractions

I have been having a problem with calculating my extractions.  Sometimes it works and other times it doesn't.  The problem I'm having is that when I calculate my extraction, all the levels turn off, even though they were on before I calculated the extraction.  The extraction is cut properly because when I turn the levels back on, everything looks right.  Do you have any suggestions on why these levels turn off when I calculate the extractions?  Thanks