11 #if !defined(GLOBALMASTERFREEENERGY_H)    12 #define GLOBALMASTERFREEENERGY_H    22   virtual void calculate();
    23   void user_calculate();
    26   void user_initialize();
    35   int getAtomID(
const char *segid, 
int resid, 
const char *aname);
    37   int getAtomID(
const char *segid, 
int resid, 
int index);
 int getPosition(int atomid, Position &position)
 
int getAtomID(const char *segid, int resid, const char *aname)
 
int requestAtom(int atomid)
 
~GlobalMasterFreeEnergy()
 
int addForce(int atomid, Force force)
 
Molecule stores the structural information for the system. 
 
int getNumAtoms(const char *segid, int resid)
 
double getMass(int atomid)