Goldbeter1991OdeSystem.cpp

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#include "Goldbeter1991OdeSystem.hpp"
#include "CellwiseOdeSystemInformation.hpp"
 
Goldbeter1991OdeSystem::Goldbeter1991OdeSystem(std::vector<double> stateVariables)
    : AbstractOdeSystem(3)
{
    mpSystemInfo.reset(new CellwiseOdeSystemInformation<Goldbeter1991OdeSystem>);
 
//    SetDefaultInitialCondition(0, 0.01); // soon overwritten
//    SetDefaultInitialCondition(1, 0.01); // soon overwritten
//    SetDefaultInitialCondition(2, 0.01); // soon overwritten
 
    if (stateVariables != std::vector<double>())
    {
        SetStateVariables(stateVariables);
    }
}
 
Goldbeter1991OdeSystem::~Goldbeter1991OdeSystem()
{
}
 
void Goldbeter1991OdeSystem::EvaluateYDerivatives(double time, const std::vector<double>& rY, std::vector<double>& rDY)
{
    // state values
    double C = rY[0]; // cyclin
    double M = rY[1]; // kinase
    double X = rY[2]; // protease
 
    // consts
    const double cell = 1;
    const double VM1 = 3;
    const double VM3 = 1;
    const double Kc = 0.5;
 
    // calculations
    double reaction1 = cell * 0.025;
    double reaction2 = C * cell * 0.01;
    double reaction3 = C * cell * 0.25 * X * pow(C + 0.02, -1);
    double reaction5 = cell * M * 1.5 * pow(0.005 + M, -1);
    double reaction7 = cell * 0.5 * X * pow(0.005 + X, -1);
    double V3 = M * VM3;
    double V1 = C * VM1 * pow(C + Kc, -1);
    double reaction6 = cell * V3 * (1 + -1 * X) * pow(0.005 + -1 * X + 1, -1);
    double reaction4 = cell * (1 + -1 * M) * V1 * pow(0.005 + -1 * M + 1, -1);
 
    // ODEs
    rDY[0] = (reaction1 - reaction2 - reaction3) / cell; // dC/dt
    rDY[1] = (reaction4 - reaction5) / cell; // dM/dt
    rDY[2] = (reaction6 - reaction7) / cell; // dX/dt
}
 
template<>
void CellwiseOdeSystemInformation<Goldbeter1991OdeSystem>::Initialise()
{
    this->mVariableNames.push_back("Cyclin");
    this->mVariableUnits.push_back("non-dim");
    this->mInitialConditions.push_back(0.01); // will be filled in later
 
    this->mVariableNames.push_back("CDC-2 Kinase");
    this->mVariableUnits.push_back("non-dim");
    this->mInitialConditions.push_back(0.01); // will be filled in later
 
    this->mVariableNames.push_back("Cyclin Protease");
    this->mVariableUnits.push_back("non-dim");
    this->mInitialConditions.push_back(0.01); // will be filled in later
 
    this->mInitialised = true;
}
 
// Serialization for Boost >= 1.36
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(Goldbeter1991OdeSystem)