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/**********************************************************************
** This program is part of 'MOOSE', the
** Messaging Object Oriented Simulation Environment.
** Copyright (C) 2003-2010 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.
**********************************************************************/
#include "header.h"
#include "ElementValueFinfo.h"
#include "lookupVolumeFromMesh.h"
#include "ReacBase.h"
#include "Reac.h"
#define EPSILON 1e-15
const Cinfo* Reac::initCinfo()
{
//////////////////////////////////////////////////////////////
// Field Definitions: All inherited from ReacBase
//////////////////////////////////////////////////////////////
//////////////////////////////////////////////////////////////
// MsgDest Definitions: All inherited
//////////////////////////////////////////////////////////////
//////////////////////////////////////////////////////////////
// Shared Msg Definitions: All inherited.
//////////////////////////////////////////////////////////////
static Dinfo< Reac > dinfo;
static Cinfo reacCinfo (
"Reac",
ReacBase::initCinfo(),
0,
0,
&dinfo
);
return &reacCinfo;
}
static const Cinfo* reacCinfo = Reac::initCinfo();
static const SrcFinfo2< double, double >* subOut =
dynamic_cast< const SrcFinfo2< double, double >* >(
reacCinfo->findFinfo( "subOut" ) );
static const SrcFinfo2< double, double >* prdOut =
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dynamic_cast< const SrcFinfo2< double, double >* >(
reacCinfo->findFinfo( "prdOut" ) );
//////////////////////////////////////////////////////////////
// Reac internal functions
//////////////////////////////////////////////////////////////
Reac::Reac( )
: kf_( 0.1 ), kb_( 0.2 ), sub_( 0.0 ), prd_( 0.0 )
{
;
}
/*
Reac::Reac( double kf, double kb )
: kf_( kf ), kb_( kb ), concKf_( 0.1 ), concKb_( 0.2 ),
sub_( 0.0 ), prd_( 0.0 )
{
;
}
*/
//////////////////////////////////////////////////////////////
// MsgDest Definitions
//////////////////////////////////////////////////////////////
void Reac::vSub( double v )
{
sub_ *= v;
}
void Reac::vPrd( double v )
{
prd_ *= v;
}
void Reac::vProcess( const Eref& e, ProcPtr p )
{
prdOut->send( e, sub_, prd_ );
subOut->send( e, prd_, sub_ );
sub_ = kf_;
prd_ = kb_;
}
void Reac::vReinit( const Eref& e, ProcPtr p )
{
sub_ = kf_ = concKf_ /
convertConcToNumRateUsingMesh( e, subOut, 0 );
prd_ = kb_ = concKb_ /
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convertConcToNumRateUsingMesh( e, prdOut, 0 );
}
void Reac::vRemesh( const Eref& e )
{
kf_ = concKf_ / convertConcToNumRateUsingMesh( e, subOut, 0 );
kb_ = concKb_ / convertConcToNumRateUsingMesh( e, prdOut, 0 );
}
//////////////////////////////////////////////////////////////
// Field Definitions
//////////////////////////////////////////////////////////////
void Reac::vSetNumKf( const Eref& e, double v )
{
sub_ = kf_ = v;
double volScale = convertConcToNumRateUsingMesh( e, subOut, false );
concKf_ = kf_ * volScale;
}
double Reac::vGetNumKf( const Eref& e) const
{
double kf = concKf_ / convertConcToNumRateUsingMesh( e, subOut, false );
return kf;
}
void Reac::vSetNumKb( const Eref& e, double v )
{
prd_ = kb_ = v;
/*
double volScale = convertConcToNumRateUsingMesh( e, prdOut, true );
vector< double > vols;
getReactantVols( e, subOut, vols );
assert( vols.size() > 0 );
volScale /= (vols[0] * NA);
*/
double volScale = convertConcToNumRateUsingMesh( e, prdOut, false );
concKb_ = kb_ * volScale;
}
double Reac::vGetNumKb( const Eref& e ) const
{
double kb = concKb_ / convertConcToNumRateUsingMesh( e, prdOut, 0 );
return kb;
}
void Reac::vSetConcKf( const Eref& e, double v )
{
concKf_ = v;
sub_ = kf_ = v / convertConcToNumRateUsingMesh( e, subOut, 0 );
}
double Reac::vGetConcKf( const Eref& e ) const
{
return concKf_;
}
void Reac::vSetConcKb( const Eref& e, double v )
{
concKb_ = v;
prd_ = kb_ = v / convertConcToNumRateUsingMesh( e, prdOut, 0 );
}
double Reac::vGetConcKb( const Eref& e ) const
{
return concKb_;
}