fixing the build system
Creating busticated version of OpenMD
Added svn revision number to build process, incremented minor version number, corrected a minimizer keyword
removing spurious cutoffGroup lines from default water.md sample files
Almost all of the changes necessary to create OpenMD out of our old project (OOPSE-4)
Code work on thiols and TraPPE torsions.
Removed accidental print lines.
Added model for thiols.
Added minimizer sample for metal.