com.banda.chemistry.business

Class AcReplicator

java.lang.Object

com.banda.chemistry.business.AcReplicator

public class AcReplicator
extends Object

Method Summary

Methods

Modifier and Type	Method and Description
<T> T	clone(T object)
<T> T	clone(T object, Class<T> clazz)
AcInteractionSeries	cloneActionSeriesWithActions(AcInteractionSeries actionSeries)
AcInteractionSeries	cloneActionSeriesWithActionsRecursively(AcInteractionSeries actionSeries)
AcInteractionSeries	cloneActionSeriesWithActionsRecursively(AcInteractionSeries actionSeries, Map<AcInteractionSeries,AcInteractionSeries> actionSeriesCloneMap)
AcInteraction	cloneActionWithSpeciesActions(AcInteraction action)
AcInteraction	cloneActionWithSpeciesActions(AcInteraction action, Map<AcInteractionVariable,AcInteractionVariable> variableCloneMap)
ArtificialChemistry	cloneAcWithSkinAndReactionSet(ArtificialChemistry ac)
ArtificialChemistrySpec	cloneArtificialChemistrySpec(ArtificialChemistrySpec acReactionSetSpec)
void	cloneChannels(AcCompartment compartment, AcCompartment compartmentClone, Map<AcCompartmentChannel,AcCompartmentChannel> channelCloneMap)
AcCompartment	cloneCompartmentWithChannelsRecursively(AcCompartment compartment, Map<AcCompartment,AcCompartment> compartmentCloneMap)
AcCompartment	cloneCompartmentWithChannelsRecursively(AcCompartment compartment, Map<AcCompartment,AcCompartment> compartmentCloneMap, Map<AcCompartmentChannel,AcCompartmentChannel> channelCloneMap)
AcCompartment	cloneCompartmentWithReactionSet(AcCompartment compartment)
<IN,OUT> com.banda.function.domain.Function<IN,OUT>	cloneFunction(com.banda.function.domain.Function<IN,OUT> function)
AcInteractionVariableAssignment	cloneInteractionVariableAssignment(AcInteractionVariableAssignment assignment)
<T> com.banda.math.domain.dynamics.MultiRunAnalysisSpec<T>	cloneMultiRunAnalysisSpec(com.banda.math.domain.dynamics.MultiRunAnalysisSpec<T> multiRunAnalysisSpec)
AcReaction	cloneReaction(AcReaction reaction)
AcReactionSet	cloneReactionSetWithReactionsAndGroups(AcReactionSet reactionSet)
com.banda.math.domain.dynamics.SingleRunAnalysisSpec	cloneSingleRunAnalysisSpec(com.banda.math.domain.dynamics.SingleRunAnalysisSpec singleRunAnalysisSpec)
AcSpeciesInteraction	cloneSpeciesAction(AcSpeciesInteraction speciesAction)
AcSpeciesSet	cloneSpeciesSetWithParameterSet(AcSpeciesSet speciesSet)
void	cloneSubChannelGroups(AcCompartment compartment, AcCompartment compartmentClone, Map<AcCompartmentChannel,AcCompartmentChannel> channelCloneMap)
AcTranslationItem	cloneTranslationItem(AcTranslationItem translationItem)
AcTranslationSeries	cloneTranslationSeriesWithTranslations(AcTranslationSeries translationSeries)
AcTranslation	cloneTranslationWithItems(AcTranslation translation)
AcTranslation	cloneTranslationWithItems(AcTranslation translation, Map<AcTranslationVariable,AcTranslationVariable> variableCloneMap)
static AcReplicator	getInstance()
void	nullIdAndVersion(AcReaction reaction)
void	nullIdAndVersion(AcTranslationSeries translationSeries)
void	nullIdAndVersionRecursively(AcCompartment compartment)
void	nullIdAndVersionRecursively(AcInteractionSeries actionSeries)
void	nullIdAndVersionRecursively(AcReactionSet reactionSet)

Methods inherited from class java.lang.Object

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

Method Detail

getInstance

public static AcReplicator getInstance()

clone

public <T> T clone(T object)

clone

public <T> T clone(T object,
          Class<T> clazz)

nullIdAndVersionRecursively

public void nullIdAndVersionRecursively(AcReactionSet reactionSet)

nullIdAndVersion

public void nullIdAndVersion(AcReaction reaction)

cloneAcWithSkinAndReactionSet

public ArtificialChemistry cloneAcWithSkinAndReactionSet(ArtificialChemistry ac)

cloneCompartmentWithReactionSet

public AcCompartment cloneCompartmentWithReactionSet(AcCompartment compartment)

cloneCompartmentWithChannelsRecursively

public AcCompartment cloneCompartmentWithChannelsRecursively(AcCompartment compartment,
                                                    Map<AcCompartment,AcCompartment> compartmentCloneMap)

cloneCompartmentWithChannelsRecursively

public AcCompartment cloneCompartmentWithChannelsRecursively(AcCompartment compartment,
                                                    Map<AcCompartment,AcCompartment> compartmentCloneMap,
                                                    Map<AcCompartmentChannel,AcCompartmentChannel> channelCloneMap)

cloneChannels

public void cloneChannels(AcCompartment compartment,
                 AcCompartment compartmentClone,
                 Map<AcCompartmentChannel,AcCompartmentChannel> channelCloneMap)

cloneSubChannelGroups

public void cloneSubChannelGroups(AcCompartment compartment,
                         AcCompartment compartmentClone,
                         Map<AcCompartmentChannel,AcCompartmentChannel> channelCloneMap)

cloneReactionSetWithReactionsAndGroups

public AcReactionSet cloneReactionSetWithReactionsAndGroups(AcReactionSet reactionSet)

cloneReaction

public AcReaction cloneReaction(AcReaction reaction)

cloneFunction

public <IN,OUT> com.banda.function.domain.Function<IN,OUT> cloneFunction(com.banda.function.domain.Function<IN,OUT> function)

nullIdAndVersionRecursively

public void nullIdAndVersionRecursively(AcInteractionSeries actionSeries)

nullIdAndVersionRecursively

public void nullIdAndVersionRecursively(AcCompartment compartment)

nullIdAndVersion

public void nullIdAndVersion(AcTranslationSeries translationSeries)

cloneActionSeriesWithActionsRecursively

public AcInteractionSeries cloneActionSeriesWithActionsRecursively(AcInteractionSeries actionSeries)

cloneActionSeriesWithActionsRecursively

public AcInteractionSeries cloneActionSeriesWithActionsRecursively(AcInteractionSeries actionSeries,
                                                          Map<AcInteractionSeries,AcInteractionSeries> actionSeriesCloneMap)

cloneActionSeriesWithActions

public AcInteractionSeries cloneActionSeriesWithActions(AcInteractionSeries actionSeries)

cloneActionWithSpeciesActions

public AcInteraction cloneActionWithSpeciesActions(AcInteraction action)

cloneActionWithSpeciesActions

public AcInteraction cloneActionWithSpeciesActions(AcInteraction action,
                                          Map<AcInteractionVariable,AcInteractionVariable> variableCloneMap)

cloneSpeciesAction

public AcSpeciesInteraction cloneSpeciesAction(AcSpeciesInteraction speciesAction)

cloneInteractionVariableAssignment

public AcInteractionVariableAssignment cloneInteractionVariableAssignment(AcInteractionVariableAssignment assignment)

cloneSpeciesSetWithParameterSet

public AcSpeciesSet cloneSpeciesSetWithParameterSet(AcSpeciesSet speciesSet)

cloneSingleRunAnalysisSpec

public com.banda.math.domain.dynamics.SingleRunAnalysisSpec cloneSingleRunAnalysisSpec(com.banda.math.domain.dynamics.SingleRunAnalysisSpec singleRunAnalysisSpec)

cloneMultiRunAnalysisSpec

public <T> com.banda.math.domain.dynamics.MultiRunAnalysisSpec<T> cloneMultiRunAnalysisSpec(com.banda.math.domain.dynamics.MultiRunAnalysisSpec<T> multiRunAnalysisSpec)

cloneArtificialChemistrySpec

public ArtificialChemistrySpec cloneArtificialChemistrySpec(ArtificialChemistrySpec acReactionSetSpec)

cloneTranslationSeriesWithTranslations

public AcTranslationSeries cloneTranslationSeriesWithTranslations(AcTranslationSeries translationSeries)

cloneTranslationWithItems

public AcTranslation cloneTranslationWithItems(AcTranslation translation)

cloneTranslationWithItems

public AcTranslation cloneTranslationWithItems(AcTranslation translation,
                                      Map<AcTranslationVariable,AcTranslationVariable> variableCloneMap)

cloneTranslationItem

public AcTranslationItem cloneTranslationItem(AcTranslationItem translationItem)