Ticket 558 - Replication - make timeout for protocol shutdown configurable
    
    Bug Description:  If you attempt to stop a replica while its under load it will
                      appear to hang.  The "hang" is actually a default timeout of
                      20 minutes.
    
    Fix Description:  Made the timeout configurable, with a default timeout of 2 minutes.
                      Also found an issue with the replication connection code where
                      we needed to check for server shutdown.
    
                      Did some code cleanup as well.
    
    https://fedorahosted.org/389/ticket/558
    
    Reviewed by: richm(Thanks Rich!)