DeltaNotchInteriorOdeSystem.cpp

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#include "CellwiseOdeSystemInformation.hpp"
#include "DeltaNotchInteriorOdeSystem.hpp"
 
DeltaNotchInteriorOdeSystem::DeltaNotchInteriorOdeSystem(std::vector<double> stateVariables)
    : AbstractOdeSystem(2)
{
    mpSystemInfo.reset(new CellwiseOdeSystemInformation<DeltaNotchInteriorOdeSystem>);
 
    SetDefaultInitialCondition(0, 1.0); // soon overwritten
    SetDefaultInitialCondition(1, 1.0); // soon overwritten
 
    this->mParameters.push_back(0.5);
    this->mParameters.push_back(0.5);
 
    if (stateVariables != std::vector<double>())
    {
        SetStateVariables(stateVariables);
    }
}
 
DeltaNotchInteriorOdeSystem::~DeltaNotchInteriorOdeSystem()
{
}
 
void DeltaNotchInteriorOdeSystem::EvaluateYDerivatives(double time, const std::vector<double>& rY, std::vector<double>& rDY)
{
    const double notch = rY[0];
    const double delta = rY[1];
 
    // Total edge delta/notch used to regulate expression/decay of cytoplasmic delta/notch
    const double edge_delta = this->mParameters[0];
    const double edge_notch = this->mParameters[1];
    // The next two lines define the DeltaNotch ODE system
    // The decay rate is modified to reflect recruitment into membrane
    // Here, Notch production is activated by total edge delta and Delta production inhibitied by total edge Notch
    rDY[0] = edge_delta*edge_delta/(0.01 + edge_delta*edge_delta) - notch*(1.0+0.1);  // d[Notch]/dt
    rDY[1] = 1.0/(1.0 + 100.0*edge_notch*edge_notch) - delta*(1.0+0.1);                   // d[Delta]/dt
}
 
template<>
void CellwiseOdeSystemInformation<DeltaNotchInteriorOdeSystem>::Initialise()
{
    this->mVariableNames.push_back("Notch");
    this->mVariableUnits.push_back("non-dim");
    this->mInitialConditions.push_back(0.0); // will be initialised later
 
    this->mVariableNames.push_back("Delta");
    this->mVariableUnits.push_back("non-dim");
    this->mInitialConditions.push_back(0.0); // will be initialised later
 
    this->mParameterNames.push_back("total neighbour edge delta");
    this->mParameterUnits.push_back("non-dim");
    this->mParameterNames.push_back("total edge notch");
    this->mParameterUnits.push_back("non-dim");
    this->mInitialised = true;
}
 
// Serialization for Boost >= 1.36
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(DeltaNotchInteriorOdeSystem)