 -- Engine code directory --

 * This is the directory containing all the major class definitions.

 * Files:
   - atoms.py: Deals with classical simulations.
   - barostats.py: Deals with constant pressure simulations.
   - beads.py: Deals with quantum simulations.
   - cell.py: Deals with the simulation box.
   - ensembles.py: Deals with the different ensembles.
   - forces.py: Deals with creating the jobs to send to the driver code.
   - initializer.py: Deals with initialization of the simulation.
   - normalmodes.py: Deals with the normal mode transformations.
   - outputs.py: Deals with the output files.
   - properties.py: Deals with calculating all the output properties.
   - simulation.py: Deals with all the top level information, such as 
      input/output.
   - thermostats.py: Deals with constant temperature simulations.
