Only one command executed because index is moved up once

[csm10495]

Controller::checkForChanges() should update via setIndex at the end of processing. We should use a while loop to pass all commands in the delta to processCommandAndPostCompletion().

Right now it only does on command max per check and will skip over all but one here.

Probably a good place to chance to possibly update Queue to have a head/tail field. The idea would be that the head would move up one command at a time until it == tail.