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/* |
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* Copyright (c) 2005 The University of Notre Dame. All Rights Reserved. |
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* |
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* The University of Notre Dame grants you ("Licensee") a |
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* non-exclusive, royalty free, license to use, modify and |
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* redistribute this software in source and binary code form, provided |
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* that the following conditions are met: |
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* |
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* 1. Redistributions of source code must retain the above copyright |
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* notice, this list of conditions and the following disclaimer. |
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* |
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* 2. Redistributions in binary form must reproduce the above copyright |
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* notice, this list of conditions and the following disclaimer in the |
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* documentation and/or other materials provided with the |
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* distribution. |
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* |
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* This software is provided "AS IS," without a warranty of any |
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* kind. All express or implied conditions, representations and |
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* warranties, including any implied warranty of merchantability, |
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* fitness for a particular purpose or non-infringement, are hereby |
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* excluded. The University of Notre Dame and its licensors shall not |
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* be liable for any damages suffered by licensee as a result of |
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* using, modifying or distributing the software or its |
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* derivatives. In no event will the University of Notre Dame or its |
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* licensors be liable for any lost revenue, profit or data, or for |
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* direct, indirect, special, consequential, incidental or punitive |
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* damages, however caused and regardless of the theory of liability, |
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* arising out of the use of or inability to use software, even if the |
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* University of Notre Dame has been advised of the possibility of |
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* such damages. |
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* |
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* SUPPORT OPEN SCIENCE! If you use OpenMD or its source code in your |
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* research, please cite the appropriate papers when you publish your |
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* work. Good starting points are: |
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* |
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* [1] Meineke, et al., J. Comp. Chem. 26, 252-271 (2005). |
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* [2] Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006). |
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* [3] Sun, Lin & Gezelter, J. Chem. Phys. 128, 234107 (2008). |
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* [4] Kuang & Gezelter, J. Chem. Phys. 133, 164101 (2010). |
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* [5] Vardeman, Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011). |
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*/ |
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#ifndef APPLICATION_HYDRODYNAMICS_HYDRODYNAMICSMODEL_HPP |
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#define APPLICATION_HYDRODYNAMICS_HYDRODYNAMICSMODEL_HPP |
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#include <vector> |
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|
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#include "math/Vector3.hpp" |
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#include "math/SquareMatrix3.hpp" |
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#include "math/DynamicRectMatrix.hpp" |
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#include "primitives/Molecule.hpp" |
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#include "hydrodynamics/HydroProp.hpp" |
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#include "utils/PhysicalConstants.hpp" |
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|
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namespace OpenMD { |
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|
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struct BeadParam { |
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std::string atomName; |
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Vector3d pos; |
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RealType radius; |
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}; |
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|
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class Shape; |
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class Sphere; |
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class Ellipsoid; |
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class CompositeShape; |
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|
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class HydrodynamicsModel { |
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public: |
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HydrodynamicsModel(StuntDouble* sd, SimInfo* info) : sd_(sd), info_(info) {} |
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virtual ~HydrodynamicsModel() {} |
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|
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virtual bool calcHydroProps(Shape* shape, RealType viscosity, RealType temperature); |
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|
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virtual void init() {}; |
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virtual void writeBeads(std::ostream& os) = 0; |
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void writeHydroProps(std::ostream& os); |
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HydroProp* getHydroPropsAtCR() {return cr_;} |
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HydroProp* getHydroPropsAtCD() {return cd_;} |
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|
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void setCR(HydroProp* cr) {cr_ = cr;} |
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void setCD(HydroProp* cd) {cd_ = cd;} |
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std::string getStuntDoubleName() { return sd_->getType();} |
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protected: |
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StuntDouble* sd_; |
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SimInfo* info_; |
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private: |
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HydroProp* cr_; |
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HydroProp* cd_; |
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std::vector<BeadParam> beads_; |
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}; |
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|
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} |
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|
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#endif |
