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TrimerDissociation.cpp

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// TrimerDissociation.cpp: implementation of the TrimerDissociation class.
//

#include "TrimerDissociation.h"

// Construction/Destruction

CTrimerDissociation::CTrimerDissociation(Chemical *Trimer, Chemical *A, Chemical *B, Chemical *C, RateConstant *k_d, std::string reactionName)
:Reaction(reactionName)
{
        // stoichiometry
        this->Trimer = chemicals.size();
        chemicals.push_back(Trimer);
        numberOfEachChemicalChangedByReaction.push_back(-1);

        this->A = chemicals.size();
        chemicals.push_back(A);
        numberOfEachChemicalChangedByReaction.push_back(+1);

        this->B = chemicals.size();
        chemicals.push_back(B);
        numberOfEachChemicalChangedByReaction.push_back(+1);

        this->C = chemicals.size();
        chemicals.push_back(C);
        numberOfEachChemicalChangedByReaction.push_back(+1);

        // rates
        this->k_d = rateConstants.size();
        rateConstants.push_back(k_d);

        // put enough dummy chemicalJacobian elements on the vector 
        // - they are recomputed every time you ask for the chemicalJacobian
        chemicalJacobian.push_back(new JElement(-1,-1));

        this->SetTeXForm();


}

CTrimerDissociation::~CTrimerDissociation()
{

}

double CTrimerDissociation::GetRate() const
{
        return rateConstants[k_d]->GetValue()*chemicals[Trimer]->GetAmount();
}

void CTrimerDissociation::SetTeXForm()
{
        strstream stream;
        // TeX form of the reaction
        stream << rateConstants[k_d]->GetTeXName().c_str();
        stream << "\\left [" << chemicals[Trimer]->GetTeXName().c_str();
        stream << "\\right ]";
        // add a NULL
        //int namesize = (chemicals[Generator]->GetName()).length();
        //stream << (chemicals[Generator]->GetName())[namesize];
        stream << ends;
        // set the TeX string equal to what's in the stream
        m_sTeXForm = stream.str();
        // free up the string
        stream.rdbuf()->freeze(0);
}

std::vector<Reaction::JElement *> *CTrimerDissociation::GetChemicalJacobian()
{
        chemicalJacobian[0]->SetWithRespectTo(chemicals[Trimer]->GetChemicalNumber());
        chemicalJacobian[0]->SetJValue(rateConstants[k_d]->GetValue());
        
        return &chemicalJacobian;
}

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