CTrajAdaptiveSA::CReactionDependencies Class Reference

Collaboration diagram for CTrajAdaptiveSA::CReactionDependencies:

Public Member Functions
	CReactionDependencies ()
	CReactionDependencies (const CReactionDependencies &src)
CReactionDependencies &	operator= (const CReactionDependencies &rhs)
	~CReactionDependencies ()

Public Attributes
std::vector< Refresh * >	mCalculations
CVector< size_t >	mDependentReactions
CVector< C_FLOAT64 * >	mMethodSpecies
CVector< size_t >	mMethodSpeciesIndex
CVector< C_FLOAT64 * >	mMethodSubstrates
CVector< C_FLOAT64 * >	mModelSpecies
CVector< C_FLOAT64 * >	mModelSubstrates
C_FLOAT64 *	mpParticleFlux
CVector< C_FLOAT64 >	mSpeciesMultiplier
CVector< C_FLOAT64 >	mSubstrateMultiplier

Detailed Description

Definition at line 42 of file CTrajAdaptiveSA.h.

Constructor & Destructor Documentation

CTrajAdaptiveSA::CReactionDependencies::CReactionDependencies

(

)

Default constructor

Definition at line 32 of file CTrajAdaptiveSA.cpp.

                                                           :
  mMethodSpeciesIndex(0),
  mSpeciesMultiplier(0),
  mMethodSpecies(0),
  mModelSpecies(0),
  mCalculations(),
  mDependentReactions(0),
  mSubstrateMultiplier(0),
  mMethodSubstrates(0),
  mModelSubstrates(0),
  mpParticleFlux(NULL)
{}

CTrajAdaptiveSA::CReactionDependencies::CReactionDependencies

(

const CReactionDependencies &

src

)

Copy constructor

Parameters

const

CReactionDependencies & src

Definition at line 45 of file CTrajAdaptiveSA.cpp.

                                                                                            :
  mMethodSpeciesIndex(src.mMethodSpeciesIndex),
  mSpeciesMultiplier(src.mSpeciesMultiplier),
  mMethodSpecies(src.mMethodSpecies),
  mModelSpecies(src.mModelSpecies),
  mCalculations(src.mCalculations),
  mDependentReactions(src.mDependentReactions),
  mSubstrateMultiplier(src.mSubstrateMultiplier),
  mMethodSubstrates(src.mMethodSubstrates),
  mModelSubstrates(src.mModelSubstrates),
  mpParticleFlux(src.mpParticleFlux)
{}

CTrajAdaptiveSA::CReactionDependencies::~CReactionDependencies

(

)

Destructor

Definition at line 58 of file CTrajAdaptiveSA.cpp.

{}

Member Function Documentation

CTrajAdaptiveSA::CReactionDependencies & CTrajAdaptiveSA::CReactionDependencies::operator=

(

const CReactionDependencies &

rhs

)

Assignment operator

Parameters

const

CReactionDependencies & rhs

Returns

CReactionDependencies &

Definition at line 61 of file CTrajAdaptiveSA.cpp.

References mCalculations, mDependentReactions, mMethodSpecies, mMethodSubstrates, mModelSpecies, mModelSubstrates, mpParticleFlux, mSpeciesMultiplier, and mSubstrateMultiplier.

{
  mSpeciesMultiplier = rhs.mSpeciesMultiplier;
  mMethodSpecies = rhs.mMethodSpecies;
  mModelSpecies = rhs.mModelSpecies;
  mCalculations = rhs.mCalculations;
  mDependentReactions = rhs.mDependentReactions;
  mSubstrateMultiplier = rhs.mSubstrateMultiplier;
  mMethodSubstrates = rhs.mMethodSubstrates;
  mModelSubstrates = rhs.mModelSubstrates;
  mpParticleFlux = rhs.mpParticleFlux;

  return * this;
}

Member Data Documentation

std::vector< Refresh * > CTrajAdaptiveSA::CReactionDependencies::mCalculations

Vector of refresh methods which need to be executed to update all values required for simulation

Definition at line 93 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::doSingleSSAStep(), and operator=().

CVector< size_t > CTrajAdaptiveSA::CReactionDependencies::mDependentReactions

A vector of indexes of reaction which propensities have to be recalculated.

Definition at line 98 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::doSingleSSAStep(), and operator=().

CVector< C_FLOAT64 * > CTrajAdaptiveSA::CReactionDependencies::mMethodSpecies

Vector of pointers to method internal species values to calculate the new state.

Definition at line 83 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::doSingleSSAStep(), and operator=().

CVector< size_t > CTrajAdaptiveSA::CReactionDependencies::mMethodSpeciesIndex

Species Index

Definition at line 73 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::doSingleTauLeapStep().

CVector< C_FLOAT64 * > CTrajAdaptiveSA::CReactionDependencies::mMethodSubstrates

Vector of pointers to method internal species values to calculate the new propensity.

Definition at line 108 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::calculateAmu(), and operator=().

CVector< C_FLOAT64 * > CTrajAdaptiveSA::CReactionDependencies::mModelSpecies

Vector of pointers to model species values to calculate the new state.

Definition at line 88 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::doSingleSSAStep(), and operator=().

CVector< C_FLOAT64 * > CTrajAdaptiveSA::CReactionDependencies::mModelSubstrates

Vector of pointers to model species values to calculate the new propensity.

Definition at line 113 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::calculateAmu(), and operator=().

C_FLOAT64* CTrajAdaptiveSA::CReactionDependencies::mpParticleFlux

A pointer to the particle flux of the reaction.

Definition at line 118 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::calculateAmu(), and operator=().

CVector< C_FLOAT64 > CTrajAdaptiveSA::CReactionDependencies::mSpeciesMultiplier

Vector of multiplier to calculate the new state

Definition at line 78 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::doSingleSSAStep(), CTrajAdaptiveSA::doSingleTauLeapStep(), and operator=().

CVector< C_FLOAT64 > CTrajAdaptiveSA::CReactionDependencies::mSubstrateMultiplier

Vector of multiplier to calculate the new propensity.

Definition at line 103 of file CTrajAdaptiveSA.h.

Referenced by CTrajAdaptiveSA::calculateAmu(), and operator=().

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The documentation for this class was generated from the following files:

• CTrajAdaptiveSA.h
• CTrajAdaptiveSA.cpp