src/integrators/SMIPDForceManager.hpp

/*
 * Copyright (c) 2008 The University of Notre Dame. All Rights Reserved.
 *
 * The University of Notre Dame grants you ("Licensee") a
 * non-exclusive, royalty free, license to use, modify and
 * redistribute this software in source and binary code form, provided
 * that the following conditions are met:
 *
 * 1. Acknowledgement of the program authors must be made in any
 *    publication of scientific results based in part on use of the
 *    program.  An acceptable form of acknowledgement is citation of
 *    the article in which the program was described (Matthew
 *    A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher
 *    J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented
 *    Parallel Simulation Engine for Molecular Dynamics,"
 *    J. Comput. Chem. 26, pp. 252-271 (2005))
 *
 * 2. Redistributions of source code must retain the above copyright
 *    notice, this list of conditions and the following disclaimer.
 *
 * 3. Redistributions in binary form must reproduce the above copyright
 *    notice, this list of conditions and the following disclaimer in the
 *    documentation and/or other materials provided with the
 *    distribution.
 *
 * This software is provided "AS IS," without a warranty of any
 * kind. All express or implied conditions, representations and
 * warranties, including any implied warranty of merchantability,
 * fitness for a particular purpose or non-infringement, are hereby
 * excluded.  The University of Notre Dame and its licensors shall not
 * be liable for any damages suffered by licensee as a result of
 * using, modifying or distributing the software or its
 * derivatives. In no event will the University of Notre Dame or its
 * licensors be liable for any lost revenue, profit or data, or for
 * direct, indirect, special, consequential, incidental or punitive
 * damages, however caused and regardless of the theory of liability,
 * arising out of the use of or inability to use software, even if the
 * University of Notre Dame has been advised of the possibility of
 * such damages.
 */
 
#ifndef INTEGRATOR_SMIPDFORCEMANAGER_HPP
#define INTEGRATOR_SMIPDFORCEMANAGER_HPP

#include "brains/ForceManager.hpp"
#include "primitives/Molecule.hpp"
#include "integrators/Velocitizer.hpp"
#include "math/Hull.hpp"
#include "math/Triangle.hpp"
#include "math/SeqRandNumGen.hpp"

namespace oopse {
   
  /**
   * @class SMIDForceManager
   * Force manager for Surface Mesh Implicit Pressure Dynamics
   * applying friction and random forces as well as torques. 
   * Stochasitc force is determined by area of surface triangles 
   * on the convex hull. See: Kohanoff et al. CHEMPHYSCHEM 2005, 6, 1848-1852.
   */
  class SMIPDForceManager : public ForceManager{
    
  public:
    SMIPDForceManager(SimInfo * info);
    
  protected:
    virtual void postCalculation(bool needStress);
    
  private:
    std::vector<Vector3d> genTriangleForces(int nTriangles, RealType variance);

    Globals* simParams;
    SeqRandNumGen randNumGen_;    
    Velocitizer* veloMunge;

    RealType dt_;
    RealType targetTemp_;
    RealType targetPressure_; 
    RealType viscosity_;

    RealType variance_;

    Hull* surfaceMesh_;
    std::vector<StuntDouble*> localSites_;
  };
  
} //end namespace oopse
#endif //SIMPD_FORCEMANAGER

Revision:	1344
Committed:	Wed May 13 22:27:29 2009 UTC (16 years ago) by gezelter
Original Path:	*trunk/src/integrators/SMIPDForceManager.hpp*
File size:	3301 byte(s)
Log Message:	Adding boundary element hydrodynamics to SMIPD.
#	User	Rev	Content
1	chuckv	1293	/*
2			* Copyright (c) 2008 The University of Notre Dame. All Rights Reserved.
3			*
4			* The University of Notre Dame grants you ("Licensee") a
5			* non-exclusive, royalty free, license to use, modify and
6			* redistribute this software in source and binary code form, provided
7			* that the following conditions are met:
8			*
9			* 1. Acknowledgement of the program authors must be made in any
10			* publication of scientific results based in part on use of the
11			* program. An acceptable form of acknowledgement is citation of
12			* the article in which the program was described (Matthew
13			* A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher
14			* J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented
15			* Parallel Simulation Engine for Molecular Dynamics,"
16			* J. Comput. Chem. 26, pp. 252-271 (2005))
17			*
18			* 2. Redistributions of source code must retain the above copyright
19			* notice, this list of conditions and the following disclaimer.
20			*
21			* 3. Redistributions in binary form must reproduce the above copyright
22			* notice, this list of conditions and the following disclaimer in the
23			* documentation and/or other materials provided with the
24			* distribution.
25			*
26			* This software is provided "AS IS," without a warranty of any
27			* kind. All express or implied conditions, representations and
28			* warranties, including any implied warranty of merchantability,
29			* fitness for a particular purpose or non-infringement, are hereby
30			* excluded. The University of Notre Dame and its licensors shall not
31			* be liable for any damages suffered by licensee as a result of
32			* using, modifying or distributing the software or its
33			* derivatives. In no event will the University of Notre Dame or its
34			* licensors be liable for any lost revenue, profit or data, or for
35			* direct, indirect, special, consequential, incidental or punitive
36			* damages, however caused and regardless of the theory of liability,
37			* arising out of the use of or inability to use software, even if the
38			* University of Notre Dame has been advised of the possibility of
39			* such damages.
40			*/
41
42			#ifndef INTEGRATOR_SMIPDFORCEMANAGER_HPP
43			#define INTEGRATOR_SMIPDFORCEMANAGER_HPP
44
45			#include "brains/ForceManager.hpp"
46			#include "primitives/Molecule.hpp"
47			#include "integrators/Velocitizer.hpp"
48			#include "math/Hull.hpp"
49			#include "math/Triangle.hpp"
50	chuckv	1325	#include "math/SeqRandNumGen.hpp"
51	chuckv	1293
52			namespace oopse {
53
54			/**
55			* @class SMIDForceManager
56			* Force manager for Surface Mesh Implicit Pressure Dynamics
57			* applying friction and random forces as well as torques.
58			* Stochasitc force is determined by area of surface triangles
59			* on the convex hull. See: Kohanoff et al. CHEMPHYSCHEM 2005, 6, 1848-1852.
60			*/
61			class SMIPDForceManager : public ForceManager{
62
63			public:
64			SMIPDForceManager(SimInfo * info);
65
66			protected:
67			virtual void postCalculation(bool needStress);
68
69			private:
70	gezelter	1344	std::vector<Vector3d> genTriangleForces(int nTriangles, RealType variance);
71	gezelter	1324
72			Globals* simParams;
73	chuckv	1293	SeqRandNumGen randNumGen_;
74	chuckv	1325	Velocitizer* veloMunge;
75	gezelter	1324
76	chuckv	1323	RealType dt_;
77	chuckv	1293	RealType targetTemp_;
78	gezelter	1324	RealType targetPressure_;
79	chuckv	1323	RealType viscosity_;
80	gezelter	1324
81			RealType variance_;
82
83	chuckv	1293	Hull* surfaceMesh_;
84			std::vector<StuntDouble*> localSites_;
85			};
86
87			} //end namespace oopse
88			#endif //SIMPD_FORCEMANAGER
89