CustomManyParticleForceImpl.h

#ifndef OPENMM_CUSTOMMANYPARTICLEFORCEIMPL_H_
#define OPENMM_CUSTOMMANYPARTICLEFORCEIMPL_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) 2008-2014 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 "ForceImpl.h"
#include "openmm/CustomManyParticleForce.h"
#include "openmm/Kernel.h"
#include "lepton/CustomFunction.h"
#include "lepton/ExpressionTreeNode.h"
#include "lepton/ParsedExpression.h"
#include <utility>
#include <map>
#include <string>

namespace OpenMM {

class OPENMM_EXPORT CustomManyParticleForceImpl : public ForceImpl {
public:
    CustomManyParticleForceImpl(const CustomManyParticleForce& owner);
    ~CustomManyParticleForceImpl();
    void initialize(ContextImpl& context);
    const CustomManyParticleForce& getOwner() const {
        return owner;
    }
    void updateContextState(ContextImpl& context) {
        // This force field doesn't update the state directly.
    }
    double calcForcesAndEnergy(ContextImpl& context, bool includeForces, bool includeEnergy, int groups);
    std::map<std::string, double> getDefaultParameters();
    std::vector<std::string> getKernelNames();
    void updateParametersInContext(ContextImpl& context);
    static Lepton::ParsedExpression prepareExpression(const CustomManyParticleForce& force, const std::map<std::string, Lepton::CustomFunction*>& functions, std::map<std::string, std::vector<int> >& distances,
            std::map<std::string, std::vector<int> >& angles, std::map<std::string, std::vector<int> >& dihedrals);
    static void buildFilterArrays(const CustomManyParticleForce& force, int& numTypes, std::vector<int>& particleTypes, std::vector<int>& orderIndex, std::vector<std::vector<int> >& particleOrder);
private:
    class FunctionPlaceholder;
    static Lepton::ExpressionTreeNode replaceFunctions(const Lepton::ExpressionTreeNode& node, std::map<std::string, int> atoms,
            std::map<std::string, std::vector<int> >& distances, std::map<std::string, std::vector<int> >& angles,
            std::map<std::string, std::vector<int> >& dihedrals);
    static void generatePermutations(std::vector<int>& values, int numFixed, std::vector<std::vector<int> >& result);
    const CustomManyParticleForce& owner;
    Kernel kernel;
};

} // namespace OpenMM

#endif /*OPENMM_CUSTOMMANYPARTICLEFORCEIMPL_H_*/