hsolve/HSolvePassive.h

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/**********************************************************************
** This program is part of 'MOOSE', the
** Messaging Object Oriented Simulation Environment.
**   copyright (C) 2003-2007 Upinder S. Bhalla, Niraj Dudani 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 _HSOLVE_PASSIVE_H
#define _HSOLVE_PASSIVE_H
#include "../basecode/header.h"
#include "../biophysics/CompartmentBase.h"
#include "../biophysics/Compartment.h"
using namespace moose; // For moose::Compartment from 'Compartment.h'
#include "HSolveUtils.h"
#include "HSolveStruct.h"
#include "HinesMatrix.h"

class HSolvePassive: public HinesMatrix
{
#ifdef DO_UNIT_TESTS
    friend void testHSolvePassive();
#endif
    
public:
    void setup( Id seed, double dt );
    void solve();
    
protected:
    // Integration
    void updateMatrix();
    void forwardEliminate();
    void backwardSubstitute();
    
    vector< CompartmentStruct >       compartment_;
    vector< Id >                      compartmentId_;
    vector< double >                  V_;               
    vector< TreeNodeStruct >          tree_;            
    map< unsigned int, InjectStruct > inject_;          
private:
    // Setting up of data structures
    void clear();
    void walkTree( Id seed );
    void initialize();
    void storeTree();
    
    // Used for unit tests.
    double getV( unsigned int row ) const;
};

#endif // _HSOLVE_PASSIVE_H

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