Created a new executive job that waits for threads to finish and readies them
for their next frame of execution. Created a new job class system_thread_sync
after the top of frame jobs and before the input processor is run to sync the
threads. Along the way cleaned up instrumentation jobs on the threads to fix#290.
Saved the timestamps on the default gettimeofday clock as close to
the beginning of the simulation, after initialization is finished and
at the end of shutdown. Printed out the elapsed time as well as
the number of overruns counted by RealtimeSync.
refs #183
Conflicts:
trick_source/sim_services/RealtimeSync/src/RealtimeSync.cpp
Changed all header file once include variables to follow the same naming
convention and not start with any underscores. Also deleted old
incorrect copyright notices. Also removed $Id: tags from all files.
Fixes#14. Fixes#22.
