/* -------------------------------------------------------------------------- * * OpenMMAmoeba * * -------------------------------------------------------------------------- * * 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) 2010-2016 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 "openmm/serialization/AmoebaAngleForceProxy.h" #include "openmm/serialization/SerializationNode.h" #include "openmm/Force.h" #include "openmm/AmoebaAngleForce.h" #include using namespace OpenMM; using namespace std; AmoebaAngleForceProxy::AmoebaAngleForceProxy() : SerializationProxy("AmoebaAngleForce") { } void AmoebaAngleForceProxy::serialize(const void* object, SerializationNode& node) const { node.setIntProperty("version", 2); const AmoebaAngleForce& force = *reinterpret_cast(object); node.setIntProperty("forceGroup", force.getForceGroup()); node.setDoubleProperty("cubic", force.getAmoebaGlobalAngleCubic()); node.setDoubleProperty("quartic", force.getAmoebaGlobalAngleQuartic()); node.setDoubleProperty("pentic", force.getAmoebaGlobalAnglePentic()); node.setDoubleProperty("sextic", force.getAmoebaGlobalAngleSextic()); SerializationNode& bonds = node.createChildNode("Angles"); for (unsigned int ii = 0; ii < static_cast(force.getNumAngles()); ii++) { int particle1, particle2, particle3; double distance, k; force.getAngleParameters(ii, particle1, particle2, particle3, distance, k); bonds.createChildNode("Angle").setIntProperty("p1", particle1).setIntProperty("p2", particle2).setIntProperty("p3", particle3).setDoubleProperty("d", distance).setDoubleProperty("k", k); } } void* AmoebaAngleForceProxy::deserialize(const SerializationNode& node) const { int version = node.getIntProperty("version"); if (version < 1 || version > 2) throw OpenMMException("Unsupported version number"); AmoebaAngleForce* force = new AmoebaAngleForce(); try { if (version > 1) force->setForceGroup(node.getIntProperty("forceGroup", 0)); force->setAmoebaGlobalAngleCubic(node.getDoubleProperty("cubic")); force->setAmoebaGlobalAngleQuartic(node.getDoubleProperty("quartic")); force->setAmoebaGlobalAnglePentic(node.getDoubleProperty("pentic")); force->setAmoebaGlobalAngleSextic(node.getDoubleProperty("sextic")); const SerializationNode& bonds = node.getChildNode("Angles"); for (unsigned int ii = 0; ii < bonds.getChildren().size(); ii++) { const SerializationNode& bond = bonds.getChildren()[ii]; force->addAngle(bond.getIntProperty("p1"), bond.getIntProperty("p2"), bond.getIntProperty("p3"), bond.getDoubleProperty("d"), bond.getDoubleProperty("k")); } } catch (...) { delete force; throw; } return force; }