Closes #246 #284 #285 #288 #289 #291 - Improved Fluo cluster management.

Pull request for  #246 #284 #285 #288 #289 #291
This will occur if yarn is restarted or the user kills the yarn application using yarn.  I am going to change this so that cleanup occurs if a user runs `fluo yarn stop/kill` but a warning message will still be printed.