GssaSystem.h

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/**********************************************************************
** This program is part of 'MOOSE', the
** Messaging Object Oriented Simulation Environment.
**           Copyright (C) 2003-2014 Upinder S. Bhalla. and NCBS
** It is made available under the terms of the
** GNU Lesser General Public License version 2.1
** See the file COPYING.LIB for the full notice.
**********************************************************************/

#ifndef _GSSA_SYSTEM_H
#define _GSSA_SYSTEM_H

class Stoich;
class GssaSystem
{
public:
    GssaSystem()
        : stoich(0), useRandInit(true), isReady(false), honorMassConservation(true)
    {;}
    vector< vector< unsigned int > > dependency;
    vector< vector< unsigned int > > dependentMathExpn;
    vector< vector< unsigned int > > ratesDependentOnPool;

    KinSparseMatrix transposeN;
    Stoich* stoich;

    bool useRandInit = true;

    bool isReady = false;

    /* When set to true, it makes sure that after rounding number of molecules,
     * the sum of molecules is does not differ more than 1.0 molecules.
     */
    bool honorMassConservation = true;
};

#endif  // _GSSA_SYSTEM_H