#ifndef OPENMM_HARMONICBONDFORCE_H_ #define OPENMM_HARMONICBONDFORCE_H_ /* -------------------------------------------------------------------------- * * OpenMM * * -------------------------------------------------------------------------- * * This is part of the OpenMM molecular simulation toolkit originating from * * Simbios, the NIH National Center for Physics-Based Simulation of * * Biological Structures at Stanford, funded under the NIH Roadmap for * * Medical Research, grant U54 GM072970. See https://simtk.org. * * * * Portions copyright (c) 2008 Stanford University and the Authors. * * Authors: Peter Eastman * * Contributors: * * * * Permission is hereby granted, free of charge, to any person obtaining a * * copy of this software and associated documentation files (the "Software"), * * to deal in the Software without restriction, including without limitation * * the rights to use, copy, modify, merge, publish, distribute, sublicense, * * and/or sell copies of the Software, and to permit persons to whom the * * Software is furnished to do so, subject to the following conditions: * * * * The above copyright notice and this permission notice shall be included in * * all copies or substantial portions of the Software. * * * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL * * THE AUTHORS, CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, * * DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR * * OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE * * USE OR OTHER DEALINGS IN THE SOFTWARE. * * -------------------------------------------------------------------------- */ #include "Force.h" #include "Vec3.h" #include #include #include "internal/windowsExport.h" namespace OpenMM { /** * This class implements an interaction between pairs of particles that varies harmonically with the distance * between them. When creating a HarmonicBondForce, you specify the number of bonds as an argument to the * constructor, then loop over them and call setBondParameters() to set the force field parameters for each one. */ class OPENMM_EXPORT HarmonicBondForce : public Force { public: /** * Create a HarmonicBondForce. * * @param numBonds the number of harmonic bond stretch terms in the potential function */ HarmonicBondForce(int numBonds); /** * Get the number of harmonic bond stretch terms in the potential function */ int getNumBonds() const { return bonds.size(); } /** * Get the force field parameters for a bond term. * * @param index the index of the bond for which to get parameters * @param particle1 the index of the first particle connected by the bond * @param particle2 the index of the second particle connected by the bond * @param length the equilibrium length of the bond, measured in nm * @param k the harmonic force constant for the bond */ void getBondParameters(int index, int& particle1, int& particle2, double& length, double& k) const; /** * Set the force field parameters for a bond term. * * @param index the index of the bond for which to set parameters * @param particle1 the index of the first particle connected by the bond * @param particle2 the index of the second particle connected by the bond * @param length the equilibrium length of the bond, measured in nm * @param k the harmonic force constant for the bond */ void setBondParameters(int index, int particle1, int particle2, double length, double k); protected: ForceImpl* createImpl(); private: class BondInfo; // Retarded visual studio compiler complains about being unable to // export private stl class members. // This stanza explains that it should temporarily shut up. #if defined(_MSC_VER) #pragma warning(push) #pragma warning(disable:4251) #endif std::vector bonds; #if defined(_MSC_VER) #pragma warning(pop) #endif }; class HarmonicBondForce::BondInfo { public: int particle1, particle2; double length, k; BondInfo() { particle1 = particle2 = -1; length = k = 0.0; } }; } // namespace OpenMM #endif /*OPENMM_HARMONICBONDFORCE_H_*/