500 femtosecond, three argon atom, constant energy simulation.
Atoms interact with a Lennard-Jones potential and a very large
cutoff distance.  Integration is done with Verlet integrator.
Center of mass motion is periodically removed to make it easier
to visualize the system.

To run this example, type the following at the command prompt:

For Windows:
\Python26\python runArgon.py argon.pdb

For Linux and Mac:
python runArgon.py argon.pdb

First note which platform is being used.
Next note the Potential Energy, which should have
a negative value (about -1 or -2 kilojoule/mole).

Once the simulation is done, you can use a program like
VMD to visualize the result.  To do this, first start the
VMD application, then open argon.pdb (File->New Molecule...).
(if might be easier to see the visualization if you set
the "Drawing Method" to "VMD", under Graphs -> Representations).