/* -------------------------------------------------------------------------- * * OpenMMDrude * * -------------------------------------------------------------------------- * * 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) 2013 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/DrudeForceProxy.h" #include "openmm/serialization/SerializationNode.h" #include "openmm/Force.h" #include "openmm/DrudeForce.h" #include using namespace OpenMM; using namespace std; DrudeForceProxy::DrudeForceProxy() : SerializationProxy("DrudeForce") { } void DrudeForceProxy::serialize(const void* object, SerializationNode& node) const { node.setIntProperty("version", 1); const DrudeForce& force = *reinterpret_cast(object); node.setIntProperty("forceGroup", force.getForceGroup()); node.setStringProperty("name", force.getName()); SerializationNode& particles = node.createChildNode("Particles"); for (int i = 0; i < force.getNumParticles(); i++) { int p, p1, p2, p3, p4; double charge, polarizability, aniso12, aniso34; force.getParticleParameters(i, p, p1, p2, p3, p4, charge, polarizability, aniso12, aniso34); particles.createChildNode("Particle").setIntProperty("p", p).setIntProperty("p1", p1).setIntProperty("p2", p2).setIntProperty("p3", p3).setIntProperty("p4", p4) .setDoubleProperty("charge", charge).setDoubleProperty("polarizability", polarizability).setDoubleProperty("a12", aniso12).setDoubleProperty("a34", aniso34); } SerializationNode& pairs = node.createChildNode("ScreenedPairs"); for (int i = 0; i < force.getNumScreenedPairs(); i++) { int p1, p2; double thole; force.getScreenedPairParameters(i, p1, p2, thole); pairs.createChildNode("Pair").setIntProperty("p1", p1).setIntProperty("p2", p2).setDoubleProperty("thole", thole); } } void* DrudeForceProxy::deserialize(const SerializationNode& node) const { if (node.getIntProperty("version") != 1) throw OpenMMException("Unsupported version number"); DrudeForce* force = new DrudeForce(); try { force->setForceGroup(node.getIntProperty("forceGroup", 0)); force->setName(node.getStringProperty("name", force->getName())); const SerializationNode& particles = node.getChildNode("Particles"); for (auto& particle : particles.getChildren()) force->addParticle(particle.getIntProperty("p"), particle.getIntProperty("p1"), particle.getIntProperty("p2"), particle.getIntProperty("p3"), particle.getIntProperty("p4"), particle.getDoubleProperty("charge"), particle.getDoubleProperty("polarizability"), particle.getDoubleProperty("a12"), particle.getDoubleProperty("a34")); const SerializationNode& pairs = node.getChildNode("ScreenedPairs"); for (auto& pair : pairs.getChildren()) force->addScreenedPair(pair.getIntProperty("p1"), pair.getIntProperty("p2"), pair.getDoubleProperty("thole")); } catch (...) { delete force; throw; } return force; }