Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
Alarcon2004OxygenBasedCellCycleOdeSystem.hpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
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23THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
24AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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34*/
35
36#ifndef _ALARCON2004OXYGENBASEDCELLCYCLEODESYSTEM_HPP_
37#define _ALARCON2004OXYGENBASEDCELLCYCLEODESYSTEM_HPP_
38
40#include <boost/serialization/base_object.hpp>
41
42#include <cmath>
43
44#include "AbstractOdeSystem.hpp"
45
60{
61private:
62
68 double ma1;
70 double ma2;
72 double ma3;
74 double ma4;
76 double mb3;
78 double mb4;
80 double mc1;
82 double mc2;
84 double md1;
86 double md2;
88 double mJ3;
90 double mJ4;
92 double mEta;
94 double mMstar;
96 double mB;
101
104
107
108 friend class boost::serialization::access;
115 template<class Archive>
116 void serialize(Archive & archive, const unsigned int version)
117 {
118 archive & boost::serialization::base_object<AbstractOdeSystem>(*this);
119 }
120
121public:
122
130 Alarcon2004OxygenBasedCellCycleOdeSystem(double oxygenConcentration,
131 bool isLabelled,
132 std::vector<double> stateVariables=std::vector<double>());
133
138
142 void Init();
143
154 void EvaluateYDerivatives(double time, const std::vector<double>& rY, std::vector<double>& rDY);
155
164 bool CalculateStoppingEvent(double time, const std::vector<double>& rY);
165
171 void SetIsLabelled(bool isLabelled);
172
176 bool IsLabelled() const;
177
181 double GetOxygenConcentration() const;
182};
183
184// Declare identifier for the serializer
187
188namespace boost
189{
190namespace serialization
191{
195template<class Archive>
196inline void save_construct_data(
197 Archive & ar, const Alarcon2004OxygenBasedCellCycleOdeSystem * t, const unsigned int file_version)
198{
199 // Save data required to construct instance
200 const double oxygen_concentration = t->GetOxygenConcentration();
201 ar & oxygen_concentration;
202
203 const bool is_labelled = t->IsLabelled();
204 ar & is_labelled;
205
206 const std::vector<double>& state_variables = t->rGetConstStateVariables();
207 ar & state_variables;
208}
209
213template<class Archive>
214inline void load_construct_data(
215 Archive & ar, Alarcon2004OxygenBasedCellCycleOdeSystem * t, const unsigned int file_version)
216{
217 // Retrieve data from archive required to construct new instance
218 double oxygen_concentration;
219 ar & oxygen_concentration;
220
221 bool is_labelled;
222 ar & is_labelled;
223
224 std::vector<double> state_variables;
225 ar & state_variables;
226
227 // Invoke inplace constructor to initialise instance
228 ::new(t)Alarcon2004OxygenBasedCellCycleOdeSystem(oxygen_concentration, is_labelled, state_variables);
229}
230}
231} // namespace ...
232
233#endif /*_ALARCON2004OXYGENBASEDCELLCYCLEODESYSTEM_HPP_*/
gcov doesn't like this file...
#define CHASTE_CLASS_EXPORT(T)
void EvaluateYDerivatives(double time, const std::vector< double > &rY, std::vector< double > &rDY)
void serialize(Archive &archive, const unsigned int version)
bool CalculateStoppingEvent(double time, const std::vector< double > &rY)