TysonNovak2001OdeSystem.hpp

00001 /*
00002 
00003 Copyright (C) University of Oxford, 2005-2010
00004 
00005 University of Oxford means the Chancellor, Masters and Scholars of the
00006 University of Oxford, having an administrative office at Wellington
00007 Square, Oxford OX1 2JD, UK.
00008 
00009 This file is part of Chaste.
00010 
00011 Chaste is free software: you can redistribute it and/or modify it
00012 under the terms of the GNU Lesser General Public License as published
00013 by the Free Software Foundation, either version 2.1 of the License, or
00014 (at your option) any later version.
00015 
00016 Chaste is distributed in the hope that it will be useful, but WITHOUT
00017 ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
00018 FITNESS FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public
00019 License for more details. The offer of Chaste under the terms of the
00020 License is subject to the License being interpreted in accordance with
00021 English Law and subject to any action against the University of Oxford
00022 being under the jurisdiction of the English Courts.
00023 
00024 You should have received a copy of the GNU Lesser General Public License
00025 along with Chaste. If not, see <http://www.gnu.org/licenses/>.
00026 
00027 */
00028 #ifndef TYSONNOVAK2001ODESYSTEM_HPP_
00029 #define TYSONNOVAK2001ODESYSTEM_HPP_
00030 
00031 #include <cmath>
00032 #include <iostream>
00033 
00034 #include "AbstractOdeSystemWithAnalyticJacobian.hpp"
00035 
00040 class TysonNovak2001OdeSystem : public AbstractOdeSystemWithAnalyticJacobian
00041 {
00042 private:
00043 
00049     double mK1;
00051     double mK2d;
00053     double mK2dd;
00055     double mK2ddd;
00057     double mCycB_threshold;
00059     double mK3d;
00061     double mK3dd;
00063     double mK4d;
00065     double mK4;
00067     double mJ3;
00069     double mJ4;
00071     double mK5d;
00073     double mK5dd;
00075     double mK6;
00077     double mJ5;
00079     unsigned mN;
00081     double mK7;
00083     double mK8;
00085     double mJ7;
00087     double mJ8;
00089     double mMad;
00091     double mK9;
00093     double mK10;
00095     double mK11;
00097     double mK12d;
00099     double mK12dd;
00101     double mK12ddd;
00103     double mKeq;
00105     double mK13;
00107     double mK14;
00109     double mK15d;
00111     double mK15dd;
00113     double mK16d;
00115     double mK16dd;
00117     double mJ15;
00119     double mJ16;
00121     double mMu;
00123     double mMstar;
00124 
00125 public:
00126 
00130     TysonNovak2001OdeSystem();
00131 
00135     ~TysonNovak2001OdeSystem();
00136 
00140     void Init();
00141 
00152     void EvaluateYDerivatives(double time, const std::vector<double>& rY, std::vector<double>& rDY);
00153 
00163     bool CalculateStoppingEvent(double time, const std::vector<double>& rY);
00164 
00174     double CalculateRootFunction(double time, const std::vector<double>& rY);
00175 
00184     virtual void AnalyticJacobian(const std::vector<double>& rSolutionGuess, double** jacobian, double time, double timeStep);
00185 };
00186 
00187 #endif /*TYSONNOVAK2001ODESYSTEM_HPP_*/