de.bioforscher.singa.simulation.modules.reactions.implementations

Class DynamicReaction

java.lang.Object

de.bioforscher.singa.simulation.modules.model.AbstractSectionSpecificModule

de.bioforscher.singa.simulation.modules.reactions.model.Reaction

de.bioforscher.singa.simulation.modules.reactions.implementations.DynamicReaction

All Implemented Interfaces:

Featureable, Module

public class DynamicReaction
extends Reaction

Author:

cl

Field Summary

Fields inherited from class de.bioforscher.singa.simulation.modules.reactions.model.Reaction

availableFeatures

Fields inherited from class de.bioforscher.singa.simulation.modules.model.AbstractSectionSpecificModule

halfTime

Constructor Summary

Constructors

Constructor and Description
DynamicReaction(DynamicKineticLaw kineticLaw)
DynamicReaction(Simulation simulation, DynamicKineticLaw kineticLaw)

Method Summary

Modifier and Type	Method and Description
double	calculateVelocity(ConcentrationContainer concentrationContainer)
List<CatalyticReactant>	getCatalyticReactants()
DynamicKineticLaw	getKineticLaw()
void	setCatalyticReactants(List<CatalyticReactant> catalyticReactants)
void	setKineticLaw(DynamicKineticLaw kineticLaw)

Methods inherited from class de.bioforscher.singa.simulation.modules.reactions.model.Reaction

calculateDeltas, determineConcentration, getAvailableFeatures, getDisplayString, getFeature, getFeatures, getProducts, getScaledFeature, getStoichiometricReactants, getSubstrates, hasFeature, isElementary, setElementary, setFeature, setFeature, setStoichiometricReactants

Methods inherited from class de.bioforscher.singa.simulation.modules.model.AbstractSectionSpecificModule

addDeltaFunction, applyAlways, determineAllDeltas, determineDeltas, determineDeltasForNode, getCurrentCellSection, getCurrentNode, getFeature, getLargestLocalError, getSimulation, onlyApplyIf, resetLargestLocalError, setSimulation

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface de.bioforscher.singa.features.model.Featureable

canBeFeaturedWith, scaleScalableFeatures

Constructor Detail

DynamicReaction

public DynamicReaction(Simulation simulation,
                       DynamicKineticLaw kineticLaw)

DynamicReaction

public DynamicReaction(DynamicKineticLaw kineticLaw)

Method Detail

getKineticLaw

public DynamicKineticLaw getKineticLaw()

setKineticLaw

public void setKineticLaw(DynamicKineticLaw kineticLaw)

getCatalyticReactants

public List<CatalyticReactant> getCatalyticReactants()

setCatalyticReactants

public void setCatalyticReactants(List<CatalyticReactant> catalyticReactants)

calculateVelocity

public double calculateVelocity(ConcentrationContainer concentrationContainer)

Specified by:

calculateVelocity in class Reaction