adding qulified name prefix std
ForceFiled get compiled. Still a long way to go ......
Molecule, Atom, DirectionalAtom, RigidBody and StuntDouble classes get compiled
This commit was manufactured by cvs2svn to create branch 'new_design'.
Chris doesn't know about the OOPSE-2.0 directory structure yet
made the file reading in restraints more intelligent - no longer gives uninformative seg faults
define DEV_ROOT as relative path
change Makefile to relative path
change the #include in source files
Import of OOPSE v. 2.0