bio.singa.simulation.model.modules.qualitative

Class QualitativeModule

java.lang.Object

bio.singa.simulation.model.modules.qualitative.QualitativeModule

All Implemented Interfaces:

UpdateModule

Direct Known Subclasses:

ClathrinMediatedEndocytosis, VesicleAttachment, VesicleFusion

public abstract class QualitativeModule
extends Object
implements UpdateModule

Author:

cl

Field Summary

Fields

Modifier and Type	Field and Description
protected Simulation	simulation The simulation.
protected ModuleState	state
protected UpdateScheduler	updateScheduler

Constructor Summary

Constructors

Constructor and Description
QualitativeModule()

Method Summary

Modifier and Type	Method and Description
void	checkFeatures()
<FeatureType extends Feature> FeatureType	getFeature(Class<FeatureType> featureTypeClass)
String	getIdentifier()
Set<ChemicalEntity>	getReferencedEntities()
Set<Class<? extends Feature>>	getRequiredFeatures()
<FeatureContentType extends javax.measure.Quantity<FeatureContentType>> javax.measure.Quantity<FeatureContentType>	getScaledFeature(Class<? extends ScalableFeature<FeatureContentType>> featureClass)
ModuleState	getState()
String	getStringForProtocol()
void	resetState()
void	scaleScalableFeatures()
<FeatureType extends Feature> void	setFeature(FeatureType feature)
void	setSimulation(Simulation simulation)

Methods inherited from class java.lang.Object

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

Methods inherited from interface bio.singa.simulation.model.modules.UpdateModule

calculateUpdates, onCompletion, onReset, optimizeTimeStep

Field Detail

simulation

protected Simulation simulation

The simulation.

updateScheduler

protected UpdateScheduler updateScheduler

state

protected ModuleState state

Constructor Detail

QualitativeModule

public QualitativeModule()

Method Detail

setSimulation

public void setSimulation(Simulation simulation)

getState

public ModuleState getState()

Specified by:

getState in interface UpdateModule

resetState

public void resetState()

Specified by:

resetState in interface UpdateModule

scaleScalableFeatures

public void scaleScalableFeatures()

Specified by:

scaleScalableFeatures in interface UpdateModule

getRequiredFeatures

public Set<Class<? extends Feature>> getRequiredFeatures()

Specified by:

getRequiredFeatures in interface UpdateModule

getScaledFeature

public <FeatureContentType extends javax.measure.Quantity<FeatureContentType>> javax.measure.Quantity<FeatureContentType> getScaledFeature(Class<? extends ScalableFeature<FeatureContentType>> featureClass)

Specified by:

getScaledFeature in interface UpdateModule

setFeature

public <FeatureType extends Feature> void setFeature(FeatureType feature)

getFeature

public <FeatureType extends Feature> FeatureType getFeature(Class<FeatureType> featureTypeClass)

getReferencedEntities

public Set<ChemicalEntity> getReferencedEntities()

Specified by:

getReferencedEntities in interface UpdateModule

checkFeatures

public void checkFeatures()

Specified by:

checkFeatures in interface UpdateModule

getIdentifier

public String getIdentifier()

Specified by:

getIdentifier in interface UpdateModule

getStringForProtocol

public String getStringForProtocol()

Specified by:

getStringForProtocol in interface UpdateModule