CTauLeapMethod::CReactionDependencies Class Reference

Collaboration diagram for CTauLeapMethod::CReactionDependencies:

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

Public Attributes
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 52 of file CTauLeapMethod.h.

Constructor & Destructor Documentation

CTauLeapMethod::CReactionDependencies::CReactionDependencies

(

)

Default constructor

CTauLeapMethod

This class implements the tau-Leap method for the simulation of a biochemical system over time (see Gillespie (2001): Approximate accelerated stochastic simulation of chemically reacting systems. J. Chemical Physics, 115:1716-1733).

File name: CTauLeapMethod.cpp Author: Juergen Pahle Email: juerg.nosp@m.en.p.nosp@m.ahle@.nosp@m.eml-.nosp@m.r.vil.nosp@m.la-b.nosp@m.osch..nosp@m.de

Last change: 20, April 2004

(C) European Media Lab 2004.

Definition at line 60 of file CTauLeapMethod.cpp.

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

CTauLeapMethod::CReactionDependencies::CReactionDependencies

(

const CReactionDependencies &

src

)

Copy constructor

Parameters

const

CReactionDependencies & src

Definition at line 71 of file CTauLeapMethod.cpp.

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

CTauLeapMethod::CReactionDependencies::~CReactionDependencies

(

)

Destructor

Definition at line 82 of file CTauLeapMethod.cpp.

{}

Member Function Documentation

CTauLeapMethod::CReactionDependencies & CTauLeapMethod::CReactionDependencies::operator=

(

const CReactionDependencies &

rhs

)

Assignment operator

Parameters

const

CReactionDependencies & rhs

Returns

CReactionDependencies &

Definition at line 85 of file CTauLeapMethod.cpp.

References mMethodSpecies, mMethodSpeciesIndex, mMethodSubstrates, mModelSpecies, mModelSubstrates, mpParticleFlux, mSpeciesMultiplier, and mSubstrateMultiplier.

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

  return * this;
}

Member Data Documentation

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

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

Definition at line 94 of file CTauLeapMethod.h.

Referenced by operator=().

CVector< size_t > CTauLeapMethod::CReactionDependencies::mMethodSpeciesIndex

Vector of indexes of the species for method internal calculations

Definition at line 89 of file CTauLeapMethod.h.

Referenced by operator=().

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

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

Definition at line 109 of file CTauLeapMethod.h.

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

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

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

Definition at line 99 of file CTauLeapMethod.h.

Referenced by operator=().

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

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

Definition at line 114 of file CTauLeapMethod.h.

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

C_FLOAT64* CTauLeapMethod::CReactionDependencies::mpParticleFlux

A pointer to the particle flux of the reaction.

Definition at line 119 of file CTauLeapMethod.h.

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

CVector< C_FLOAT64 > CTauLeapMethod::CReactionDependencies::mSpeciesMultiplier

Vector of multiplier to calculate the new state

Definition at line 84 of file CTauLeapMethod.h.

Referenced by operator=().

CVector< C_FLOAT64 > CTauLeapMethod::CReactionDependencies::mSubstrateMultiplier

Vector of multiplier to calculate the new propensity.

Definition at line 104 of file CTauLeapMethod.h.

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

---

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

• CTauLeapMethod.h
• CTauLeapMethod.cpp