OOPSE/libmdtools/SimInfo.hpp

#ifndef __SIMINFO_H__
#define __SIMINFO_H__


#include "Atom.hpp"
#include "Molecule.hpp"
#include "AbstractClasses.hpp"
#include "MakeStamps.hpp"

#define __C
#include "fSimulation.h"
#include "fortranWrapDefines.hpp"


class SimInfo{

public:

  SimInfo();
  ~SimInfo(){}

  int n_atoms; // the number of atoms
  Atom **atoms; // the array of atom objects
  
  double tau[9]; // the stress tensor

  unsigned int n_bonds;    // number of bends
  unsigned int n_bends;    // number of bends
  unsigned int n_torsions; // number of torsions
  unsigned int n_oriented; // number of of atoms with orientation

  unsigned int setTemp;   // boolean to set the temperature at each sampleTime

  unsigned int n_dipoles; // number of dipoles
  double ecr;             // the electrostatic cutoff radius
  double est;             // the electrostatic skin thickness
  double dielectric;      // the dielectric of the medium for reaction field

  int n_exclude;  // the # of pairs excluded from long range forces
  Exclude** excludes;       // the pairs themselves

  int nGlobalExcludes;
  int* globalExcludes; // same as above, but these guys participate in
                       // no long range forces.

  int* identArray;     // array of unique identifiers for the atoms

  int n_constraints; // the number of constraints on the system

  unsigned int n_SRI;   // the number of short range interactions

  double lrPot; // the potential energy from the long range calculations.

  double box_x, box_y, box_z; // the periodic boundry conditions
  double rList, rCut; // variables for the neighborlist
  
  int usePBC; // whether we use periodic boundry conditions.
  int useLJ; 
  int useSticky;
  int useDipole;
  int useReactionField;
  int useGB;
  int useEAM;
  

  double dt, run_time;           // the time step and total time
  double sampleTime, statusTime; // the position and energy dump frequencies
  double target_temp;            // the target temperature of the system
  double thermalTime;            // the temp kick interval

  int n_mol;           // n_molecules;
  Molecule* molecules; // the array of molecules
  
  int nComponents;           // the number of componentsin the system
  int* componentsNmol;       // the number of molecules of each component
  MoleculeStamp** compStamps;// the stamps matching the components
  LinkedMolStamp* headStamp; // list of stamps used in the simulation
  
  
  char ensemble[100]; // the enesemble of the simulation (NVT, NVE, etc. )
  char mixingRule[100]; // the mixing rules for Lennard jones/van der walls 
  Integrator *the_integrator; // the integrator of the simulation

  char finalName[300];  // the name of the eor file to be written
  char sampleName[300]; // the name of the dump file to be written
  char statusName[300]; // the name of the stat file to be written


  // refreshes the sim if things get changed (load balanceing, volume
  // adjustment, etc.)

  void refreshSim( void );
  

  // sets the internal function pointer to fortran.

  void setInternal( void (*fSetup) setFortranSimList, 
                    void (*fBox) setFortranBoxList ){
    setFsimulation = fSetup;
    setFortranBoxSize = fBox;
  }

  void setBox( double newBox[3] );
  void getBox( double theBox[3] );

private:
  
  // private function to initialize the fortran side of the simulation
  void (*setFsimulation) setFortranSimList;

  void (*setFortranBoxSize) setFortranBoxList;
};


#endif
Revision:	457
Committed:	Fri Apr 4 19:16:11 2003 UTC (21 years, 3 months ago) by gezelter
File size:	3422 byte(s)
Log Message:	Fixes for ExtendedSystem
#	User	Rev	Content
1	mmeineke	377	#ifndef __SIMINFO_H__
2			#define __SIMINFO_H__
3
4
5
6			#include "Atom.hpp"
7			#include "Molecule.hpp"
8			#include "AbstractClasses.hpp"
9			#include "MakeStamps.hpp"
10
11			#define __C
12			#include "fSimulation.h"
13			#include "fortranWrapDefines.hpp"
14
15
16
17			class SimInfo{
18
19			public:
20
21			SimInfo();
22			~SimInfo(){}
23
24			int n_atoms; // the number of atoms
25			Atom **atoms; // the array of atom objects
26
27			double tau[9]; // the stress tensor
28
29			unsigned int n_bonds; // number of bends
30			unsigned int n_bends; // number of bends
31			unsigned int n_torsions; // number of torsions
32			unsigned int n_oriented; // number of of atoms with orientation
33
34			unsigned int setTemp; // boolean to set the temperature at each sampleTime
35
36			unsigned int n_dipoles; // number of dipoles
37	gezelter	394	double ecr; // the electrostatic cutoff radius
38			double est; // the electrostatic skin thickness
39	mmeineke	377	double dielectric; // the dielectric of the medium for reaction field
40
41			int n_exclude; // the # of pairs excluded from long range forces
42	mmeineke	427	Exclude** excludes; // the pairs themselves
43	mmeineke	377
44			int nGlobalExcludes;
45			int* globalExcludes; // same as above, but these guys participate in
46			// no long range forces.
47
48			int* identArray; // array of unique identifiers for the atoms
49
50			int n_constraints; // the number of constraints on the system
51
52			unsigned int n_SRI; // the number of short range interactions
53
54			double lrPot; // the potential energy from the long range calculations.
55
56			double box_x, box_y, box_z; // the periodic boundry conditions
57			double rList, rCut; // variables for the neighborlist
58
59			int usePBC; // whether we use periodic boundry conditions.
60			int useLJ;
61			int useSticky;
62			int useDipole;
63			int useReactionField;
64			int useGB;
65			int useEAM;
66
67
68			double dt, run_time; // the time step and total time
69			double sampleTime, statusTime; // the position and energy dump frequencies
70			double target_temp; // the target temperature of the system
71			double thermalTime; // the temp kick interval
72
73			int n_mol; // n_molecules;
74			Molecule* molecules; // the array of molecules
75
76			int nComponents; // the number of componentsin the system
77			int* componentsNmol; // the number of molecules of each component
78			MoleculeStamp** compStamps;// the stamps matching the components
79			LinkedMolStamp* headStamp; // list of stamps used in the simulation
80
81
82			char ensemble[100]; // the enesemble of the simulation (NVT, NVE, etc. )
83			char mixingRule[100]; // the mixing rules for Lennard jones/van der walls
84			Integrator *the_integrator; // the integrator of the simulation
85
86			char finalName[300]; // the name of the eor file to be written
87			char sampleName[300]; // the name of the dump file to be written
88			char statusName[300]; // the name of the stat file to be written
89
90
91			// refreshes the sim if things get changed (load balanceing, volume
92			// adjustment, etc.)
93
94			void refreshSim( void );
95
96
97			// sets the internal function pointer to fortran.
98
99			void setInternal( void (*fSetup) setFortranSimList,
100			void (*fBox) setFortranBoxList ){
101			setFsimulation = fSetup;
102			setFortranBoxSize = fBox;
103			}
104
105	gezelter	457	void setBox( double newBox[3] );
106			void getBox( double theBox[3] );
107
108	mmeineke	377	private:
109
110			// private function to initialize the fortran side of the simulation
111			void (*setFsimulation) setFortranSimList;
112
113			void (*setFortranBoxSize) setFortranBoxList;
114			};
115
116
117
118			#endif