Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
VanLeeuwen2009WntSwatCellCycleOdeSystem.hpp
1/*
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34*/
35
36#ifndef VANLEEUWEN2009WNTSWATCELLCYCLEODESYSTEM_HPP_
37#define VANLEEUWEN2009WNTSWATCELLCYCLEODESYSTEM_HPP_
38
40#include <boost/serialization/base_object.hpp>
41#include <boost/serialization/shared_ptr.hpp>
42
43#include <cmath>
44#include <iostream>
45
46#include "AbstractOdeSystem.hpp"
47#include "AbstractCellMutationState.hpp"
49
82{
83private:
84
90 double mk2d;
92 double mk3d;
94 double mk34d;
96 double mk43d;
98 double mk23d;
100 double mad;
102 double mJ11d;
104 double mJ12d;
106 double mJ13d;
108 double mJ61d;
110 double mJ62d;
112 double mJ63d;
114 double mKm1d;
116 double mkpd;
118 double mphi_r;
120 double mphi_i;
122 double mphi_j;
124 double mphi_p;
126 double mk16d;
128 double mk61d;
130 double mPhiE2F1;
131
137 double mSa;
139 double mSca;
141 double mSc;
143 double mSct;
145 double mSd;
147 double mSt;
149 double mSx;
151 double mSy;
153 double mDa;
155 double mDca;
157 double mDc;
159 double mDct;
161 double mDd;
163 double mDdx;
165 double mDt;
167 double mDu;
169 double mDx;
171 double mDy;
173 double mKc;
175 double mKd;
177 double mKt;
179 double mPc;
181 double mPu;
183 double mXiD;
185 double mXiDx;
187 double mXiX;
189 double mXiC;
190
192 boost::shared_ptr<AbstractCellMutationState> mpMutationState;
193
199 unsigned mHypothesis;
200
202 double mWntLevel;
203
204 friend class boost::serialization::access;
211 template<class Archive>
212 void serialize(Archive & archive, const unsigned int version)
213 {
214 archive & boost::serialization::base_object<AbstractOdeSystem>(*this);
215 }
216
217public:
218
227 VanLeeuwen2009WntSwatCellCycleOdeSystem(unsigned hypothesis,
228 double wntLevel = 0.0,
229 boost::shared_ptr<AbstractCellMutationState> pMutationState=boost::shared_ptr<AbstractCellMutationState>(),
230 std::vector<double> stateVariables=std::vector<double>());
231
236
240 void Init();
241
250 void SetMutationState(boost::shared_ptr<AbstractCellMutationState> pMutationState);
251
257 const boost::shared_ptr<AbstractCellMutationState> GetMutationState() const;
258
269 void EvaluateYDerivatives(double time, const std::vector<double>& rY, std::vector<double>& rDY);
270
279 bool CalculateStoppingEvent(double time, const std::vector<double>& rY);
280
290 double CalculateRootFunction(double time, const std::vector<double>& rY);
291
295 double GetWntLevel() const;
296
300 unsigned GetHypothesis() const;
301};
302
303// Declare identifier for the serializer
306
307namespace boost
308{
309namespace serialization
310{
314template<class Archive>
315inline void save_construct_data(
316 Archive & ar, const VanLeeuwen2009WntSwatCellCycleOdeSystem * t, const unsigned int file_version)
317{
318 // Save data required to construct instance
319 const unsigned hypothesis = t->GetHypothesis();
320 ar & hypothesis;
321
322 const double wnt_level = t->GetWntLevel();
323 ar & wnt_level;
324
325 const boost::shared_ptr<AbstractCellMutationState> p_mutation_state = t->GetMutationState();
326 ar & p_mutation_state;
327
328 const std::vector<double>& state_variables = t->rGetConstStateVariables();
329 ar & state_variables;
330}
331
335template<class Archive>
336inline void load_construct_data(
337 Archive & ar, VanLeeuwen2009WntSwatCellCycleOdeSystem * t, const unsigned int file_version)
338{
339 // Retrieve data from archive required to construct new instance
340 unsigned hypothesis;
341 ar & hypothesis;
342
343 double wnt_level;
344 ar & wnt_level;
345
346 boost::shared_ptr<AbstractCellMutationState> p_mutation_state;
347 ar & p_mutation_state;
348
349 std::vector<double> state_variables;
350 ar & state_variables;
351
352 // Invoke inplace constructor to initialise instance
353 ::new(t)VanLeeuwen2009WntSwatCellCycleOdeSystem(hypothesis, wnt_level, p_mutation_state, state_variables);
354}
355}
356} // namespace ...
357
358#endif /*VANLEEUWEN2009WNTSWATCELLCYCLEODESYSTEM_HPP_*/
gcov doesn't like this file...
#define CHASTE_CLASS_EXPORT(T)
const boost::shared_ptr< AbstractCellMutationState > GetMutationState() const
void serialize(Archive &archive, const unsigned int version)
double CalculateRootFunction(double time, const std::vector< double > &rY)
bool CalculateStoppingEvent(double time, const std::vector< double > &rY)
void EvaluateYDerivatives(double time, const std::vector< double > &rY, std::vector< double > &rDY)
void SetMutationState(boost::shared_ptr< AbstractCellMutationState > pMutationState)
boost::shared_ptr< AbstractCellMutationState > mpMutationState