#ifndef OPENMM_STATE_H_ #define OPENMM_STATE_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) 2008-2020 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 "Vec3.h" #include "openmm/serialization/SerializationNode.h" #include #include #include #include "internal/windowsExport.h" namespace OpenMM { /** * A State object records a snapshot of the current state of a simulation at a point in time. * You create it by calling getState() on a Context. * * When a State is created, you specify what information should be stored in it. This saves * time and memory by only copying in the information that you actually want. This is especially * important for forces and energies, since they may need to be calculated. If you query a * State object for a piece of information which is not available (because it was not requested * when the State was created), it will throw an exception. */ class OPENMM_EXPORT State { public: class StateBuilder; /** * This is an enumeration of the types of data which may be stored in a State. When you create * a State, use these values to specify which data types it should contain. */ enum DataType {Positions=1, Velocities=2, Forces=4, Energy=8, Parameters=16, ParameterDerivatives=32, IntegratorParameters=64}; /** * Construct an empty State containing no data. This exists so State objects can be used in STL containers. */ State(); /** * Get the time for which this State was created. */ double getTime() const; /** * Get the position of each particle. If this State does not contain positions, this will throw an exception. */ const std::vector& getPositions() const; /** * Get the velocity of each particle. If this State does not contain velocities, this will throw an exception. */ const std::vector& getVelocities() const; /** * Get the force acting on each particle. If this State does not contain forces, this will throw an exception. */ const std::vector& getForces() const; /** * Get the total kinetic energy of the system. If this State does not contain energies, this will throw an exception. * * Note that this may be different from simply mv2/2 summed over all particles. For example, a leapfrog * integrator will store velocities offset by half a step, so they must be adjusted before computing the kinetic energy. * This routine returns the kinetic energy at the current time, computed in a way that is appropriate for whatever * Integrator is being used. */ double getKineticEnergy() const; /** * Get the total potential energy of the system. If this State does not contain energies, this will throw an exception. */ double getPotentialEnergy() const; /** * Get the vectors defining the axes of the periodic box (measured in nm). * * @param[out] a the vector defining the first edge of the periodic box * @param[out] b the vector defining the second edge of the periodic box * @param[out] c the vector defining the third edge of the periodic box */ void getPeriodicBoxVectors(Vec3& a, Vec3& b, Vec3& c) const; /** * Get the volume of the periodic box (measured in nm^3). */ double getPeriodicBoxVolume() const; /** * Get a map containing the values of all parameters. If this State does not contain parameters, this will throw an exception. */ const std::map& getParameters() const; /** * Get a map containing derivatives of the potential energy with respect to context parameters. * In most cases derivatives are only calculated if the corresponding Force objects have been * specifically told to compute them. Otherwise, the values in the map will be zero. Likewise, * if multiple Forces depend on the same parameter but only some have been told to compute * derivatives with respect to it, the returned value will include only the contributions from * the Forces that were told to compute it. * * If this State does not contain parameter derivatives, this will throw an exception. */ const std::map& getEnergyParameterDerivatives() const; /** * Get which data types are stored in this State. The return value is a sum of DataType flags. */ int getDataTypes() const; private: friend class Context; friend class StateProxy; State(double time); void setPositions(const std::vector& pos); void setVelocities(const std::vector& vel); void setForces(const std::vector& force); void setParameters(const std::map& params); void setEnergyParameterDerivatives(const std::map& derivs); void setEnergy(double ke, double pe); void setPeriodicBoxVectors(const Vec3& a, const Vec3& b, const Vec3& c); SerializationNode& updateIntegratorParameters(); const SerializationNode& getIntegratorParameters() const; int types; double time, ke, pe; std::vector positions; std::vector velocities; std::vector forces; Vec3 periodicBoxVectors[3]; std::map parameters, energyParameterDerivatives; SerializationNode integratorParameters; }; /** * Internal class used to construct new State objects. * @private */ class OPENMM_EXPORT State::StateBuilder { public: StateBuilder(double time); State getState(); void setPositions(const std::vector& pos); void setVelocities(const std::vector& vel); void setForces(const std::vector& force); void setParameters(const std::map& params); void setEnergyParameterDerivatives(const std::map& params); void setEnergy(double ke, double pe); void setPeriodicBoxVectors(const Vec3& a, const Vec3& b, const Vec3& c); SerializationNode& updateIntegratorParameters(); private: State state; }; } // namespace OpenMM #endif /*OPENMM_STATE_H_*/