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C

calculaBloquesReglas(Psystem) - Static method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.Dnd3ProbabilisticSimulator
Deprecated.
 
canBeBudding(SpikingMembrane, SpikingMembraneStructure) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRule
 
canBeDivision(SpikingMembrane, SpikingMembraneStructure) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRule
 
canBeExecuted(SpikingMembrane, SpikingMembraneStructure) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRule
 
canBeFired(SpikingMembrane) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRule
 
canBeForgotten(SpikingMembrane) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRule
 
CellLikeConfiguration - Class in org.gcn.plinguacore.util.psystem.cellLike
This class represents configurations in cell-like P-systems
CellLikeMembrane - Class in org.gcn.plinguacore.util.psystem.cellLike.membrane
A class for a membrane for cell-like P systems
CellLikeMembraneFactory - Class in org.gcn.plinguacore.util.psystem.cellLike.membrane
This class creates CellLikeMembrane instances, according to Simple Factory idiom
CellLikeMembraneFactory() - Constructor for class org.gcn.plinguacore.util.psystem.cellLike.membrane.CellLikeMembraneFactory
 
CellLikeNoSkinMembrane - Class in org.gcn.plinguacore.util.psystem.cellLike.membrane
This class represents cell-like membranes which are not skin membranes
CellLikePsystem - Class in org.gcn.plinguacore.util.psystem.cellLike
This class represents P-systems belonging to cell-like group
CellLikePsystem() - Constructor for class org.gcn.plinguacore.util.psystem.cellLike.CellLikePsystem
Creates a new P-system without skin membrane
CellLikeRuleFactory - Class in org.gcn.plinguacore.util.psystem.rule.cellLike
 
CellLikeRuleFactory() - Constructor for class org.gcn.plinguacore.util.psystem.rule.cellLike.CellLikeRuleFactory
 
CellLikeSimulator - Class in org.gcn.plinguacore.simulator.cellLike
A simulator for cell-like P systems
CellLikeSimulator(Psystem) - Constructor for class org.gcn.plinguacore.simulator.cellLike.CellLikeSimulator
 
CellLikeSkinMembrane - Class in org.gcn.plinguacore.util.psystem.cellLike.membrane
This class represents cell-like skin membranes
ChangeableMembrane - Class in org.gcn.plinguacore.util.psystem.membrane
This class provides methods for modifiable membranes
ChangeableMembrane(Label, byte, MultiSet<String>) - Constructor for class org.gcn.plinguacore.util.psystem.membrane.ChangeableMembrane
 
ChangeableMembrane(Label, byte) - Constructor for class org.gcn.plinguacore.util.psystem.membrane.ChangeableMembrane
Creates a new ChangeableMembrane instance
ChangeableMembrane(Label) - Constructor for class org.gcn.plinguacore.util.psystem.membrane.ChangeableMembrane
Creates a new ChangeableMembrane instance which charge is 0
check(T) - Method in class org.gcn.plinguacore.util.check.BaseCheck
 
Check<T> - Interface in org.gcn.plinguacore.util.check
 
check(T) - Method in interface org.gcn.plinguacore.util.check.Check
 
check(T) - Method in class org.gcn.plinguacore.util.check.DecoratorCheck
 
checkEnvironment(String) - Method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.dcba.SkeletonRightHandRule
 
checkMutualConsistency(CellLikeConfiguration, String) - Method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.dcba.DynamicMatrix
 
checkPsystem(Psystem) - Method in class org.gcn.plinguacore.util.psystem.checkPsystem.BaseCheckPsystem
 
CheckPsystem - Interface in org.gcn.plinguacore.util.psystem.checkPsystem
 
checkPsystem(Psystem) - Method in interface org.gcn.plinguacore.util.psystem.checkPsystem.CheckPsystem
 
checkPsystem(Psystem) - Method in class org.gcn.plinguacore.util.psystem.checkPsystem.DecoratorCheckPsystem
 
CheckRule - Interface in org.gcn.plinguacore.util.psystem.rule.checkRule
This interface defines all the functionality to test if a rule complies with all the conditions stated by a model
checkRule(IRule) - Method in interface org.gcn.plinguacore.util.psystem.rule.checkRule.CheckRule
Checks if the rule r fulfills the terms stated
checkRule(IRule) - Method in class org.gcn.plinguacore.util.psystem.rule.checkRule.DecoratorCheckRule
 
checkRule(IRule) - Method in class org.gcn.plinguacore.util.psystem.rule.RulesSet
Returns true if the IRule passed as argument complies the model conditions
checkRules() - Method in class org.gcn.plinguacore.util.psystem.rule.RulesSet
Returns true if all the rules within the RuleSet complies the model conditions
cleanPreviousConfigurations() - Method in class org.gcn.plinguacore.simulator.AbstractSimulator
 
cleanPreviousConfigurations() - Method in class org.gcn.plinguacore.simulator.DecoratorSimulator
 
cleanPreviousConfigurations() - Method in interface org.gcn.plinguacore.simulator.ISimulator
Cleans the configurations previously reached
cleanPreviousConfigurations() - Method in class org.gcn.plinguacore.simulator.StepBackSupportedSimulator
 
clear() - Method in class org.gcn.plinguacore.util.ExtendedLinkedHashSet
 
clear() - Method in class org.gcn.plinguacore.util.HashInfiniteMultiSet
 
clear() - Method in class org.gcn.plinguacore.util.HashMultiSet
 
clear() - Method in class org.gcn.plinguacore.util.InmutableMultiSet
 
clear() - Method in class org.gcn.plinguacore.util.psystem.rule.RulesSet
 
clear() - Method in class org.gcn.plinguacore.util.UnionSet
 
clearSpikes() - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.Astrocyte
 
clone() - Method in class org.gcn.plinguacore.util.psystem.cellLike.CellLikeConfiguration
 
clone() - Method in class org.gcn.plinguacore.util.psystem.cellLike.membrane.CellLikeSkinMembrane
 
clone() - Method in class org.gcn.plinguacore.util.psystem.Configuration
 
clone() - Method in interface org.gcn.plinguacore.util.psystem.membrane.MembraneStructure
 
clone() - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingMembraneStructure
 
clone() - Method in class org.gcn.plinguacore.util.psystem.tissueLike.membrane.TissueLikeMembraneStructure
 
cloneSpikeTran(SpikingMembrane, SpikingMembrane) - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingEnvironment
 
close() - Method in class org.gcn.plinguacore.parser.input.byteCounter.InputStreamWrapper
 
close() - Method in class org.gcn.plinguacore.util.ByteOrderDataOutputStream
 
Communication - Class in org.gcn.plinguacore.util.psystem.rule.tissueLike
 
Communication(TissueLikeMembrane, TissueLikeMembrane, DoubleCommunicationTissueLikeRule, long) - Constructor for class org.gcn.plinguacore.util.psystem.rule.tissueLike.Communication
 
compare(IRule, IRule) - Method in class org.gcn.plinguacore.util.psystem.rule.RuleComparator
 
compareTo(IndexedPriorityQueue<E>.Node<T>) - Method in class org.gcn.plinguacore.util.IndexedPriorityQueue.Node
 
compareTo(Pair<E, T>) - Method in class org.gcn.plinguacore.util.Pair
 
compareTo(AlphabetObject) - Method in class org.gcn.plinguacore.util.psystem.AlphabetObject
 
CompleteProbabilities - Class in org.gcn.plinguacore.util.psystem.checkPsystem.specificCheckPsystem
 
CompleteProbabilities() - Constructor for class org.gcn.plinguacore.util.psystem.checkPsystem.specificCheckPsystem.CompleteProbabilities
 
CompleteProbabilities(CheckPsystem) - Constructor for class org.gcn.plinguacore.util.psystem.checkPsystem.specificCheckPsystem.CompleteProbabilities
 
computeBinarySequence() - Method in class org.gcn.plinguacore.simulator.spiking.SpikingSimulator
 
computeNaturalSequence(long, boolean, boolean) - Method in class org.gcn.plinguacore.simulator.spiking.SpikingSimulator
 
computeOutputSummatories() - Method in class org.gcn.plinguacore.simulator.spiking.SpikingSimulator
 
computeValidAsynchExecution() - Method in class org.gcn.plinguacore.simulator.spiking.SpikingSimulator
 
Configuration - Class in org.gcn.plinguacore.util.psystem
An abstract class for a Configuration
connect(Integer, Integer, ArcInfo, boolean, boolean) - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingMembraneStructure
 
connect(String, String) - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingMembraneStructure
 
connect(String, String, ArcInfo, boolean, boolean) - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingMembraneStructure
 
connect(SpikingMembrane, SpikingMembrane, ArcInfo, boolean, boolean) - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingMembraneStructure
 
connect(SpikingMembrane, SpikingMembrane, boolean, boolean) - Method in class org.gcn.plinguacore.util.psystem.spiking.membrane.SpikingMembraneStructure
 
ConsistentRules - Class in org.gcn.plinguacore.util.psystem.checkPsystem.specificCheckPsystem
 
ConsistentRules() - Constructor for class org.gcn.plinguacore.util.psystem.checkPsystem.specificCheckPsystem.ConsistentRules
 
ConsistentRules(CheckPsystem) - Constructor for class org.gcn.plinguacore.util.psystem.checkPsystem.specificCheckPsystem.ConsistentRules
 
Constant - Class in org.gcn.plinguacore.util.psystem.rule.checkRule.specificCheckRule
This class tests if the rule holds a ratio or kinetic constant.
Constant() - Constructor for class org.gcn.plinguacore.util.psystem.rule.checkRule.specificCheckRule.Constant
Creates a new Constant instance, which checks only the restrictions defined on itself.
Constant(CheckRule) - Constructor for class org.gcn.plinguacore.util.psystem.rule.checkRule.specificCheckRule.Constant
Creates a new Constant instance, which wraps cr as stated by decorator pattern.
contains(Object) - Method in class org.gcn.plinguacore.util.ExtendedLinkedHashSet
 
contains(Object) - Method in class org.gcn.plinguacore.util.HashInfiniteMultiSet
 
contains(Object) - Method in class org.gcn.plinguacore.util.HashMultiSet
 
contains(Object) - Method in class org.gcn.plinguacore.util.InmutableMultiSet
 
contains(Object) - Method in class org.gcn.plinguacore.util.psystem.rule.RulesSet
 
contains(Object) - Method in class org.gcn.plinguacore.util.UnionSet
 
containsAll(Collection<?>) - Method in class org.gcn.plinguacore.util.ExtendedLinkedHashSet
 
containsAll(Collection<?>) - Method in class org.gcn.plinguacore.util.HashInfiniteMultiSet
 
containsAll(Collection<?>) - Method in class org.gcn.plinguacore.util.HashMultiSet
 
containsAll(Collection<?>) - Method in class org.gcn.plinguacore.util.InmutableMultiSet
 
containsAll(Collection<?>) - Method in class org.gcn.plinguacore.util.psystem.rule.RulesSet
 
containsAll(Collection<?>) - Method in class org.gcn.plinguacore.util.UnionSet
 
CopyOfAbstractSimulator - Class in org.gcn.plinguacore.simulator
An abstract class for simulators
CopyOfAbstractSimulator(Psystem) - Constructor for class org.gcn.plinguacore.simulator.CopyOfAbstractSimulator
Creates a simulator which will simulate the P-system passed as argument
count(MultiSet<String>) - Method in class org.gcn.plinguacore.util.GeneString
 
count(Object) - Method in class org.gcn.plinguacore.util.HashInfiniteMultiSet
 
count(Object) - Method in class org.gcn.plinguacore.util.HashMultiSet
 
count(Object) - Method in class org.gcn.plinguacore.util.InmutableMultiSet
 
count(Object) - Method in interface org.gcn.plinguacore.util.MultiSet
 
countAlternatives() - Method in class org.gcn.plinguacore.simulator.AbstractSimulator
 
countAlternatives() - Method in class org.gcn.plinguacore.simulator.AlternativeStepsSupportedSimulator
If possible, counts the number of alternative steps available for the simulator
countAlternatives() - Method in class org.gcn.plinguacore.simulator.DecoratorSimulator
 
countAlternatives() - Method in interface org.gcn.plinguacore.simulator.ISimulator
Counts the alternative steps which could be taken
countApplications(CellLikeSkinMembrane, Map<String, Integer>, String) - Method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.dcba.EnvironmentRulesBlock
 
countApplications(CellLikeSkinMembrane, Map<String, Integer>, String) - Method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.dcba.MatrixColumn
 
countApplications(CellLikeSkinMembrane, Map<String, Integer>, String) - Method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.dcba.SkeletonRulesBlock
 
countBytes(int, int) - Method in interface org.gcn.plinguacore.parser.input.byteCounter.IByteCounter
This method counts the number of bytes from the beginning of a file at position [line,column]
countBytes(int, int) - Method in class org.gcn.plinguacore.parser.input.byteCounter.InputStreamWrapper
 
countBytes(int, int) - Method in class org.gcn.plinguacore.parser.input.byteCounter.StringReaderWrapper
 
countExecutions(Membrane) - Method in class org.gcn.plinguacore.simulator.cellLike.probabilistic.ProbabilisticLeftHandRule
 
countExecutions(ChangeableMembrane) - Method in interface org.gcn.plinguacore.util.psystem.rule.IRule
Counts the number of possible executions of the current rule on a membrane
countExecutions(ChangeableMembrane) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRule
 
countExecutions(ChangeableMembrane) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.DoubleCommunicationTissueLikeRule
 
countExecutions(ChangeableMembrane) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TissueLikeRule
 
countExecutions(ChangeableMembrane) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TSCSRule
 
countSubSets(Collection<?>) - Method in class org.gcn.plinguacore.util.HashInfiniteMultiSet
 
countSubSets(Collection<?>) - Method in class org.gcn.plinguacore.util.HashMultiSet
 
countSubSets(Collection<?>) - Method in class org.gcn.plinguacore.util.InmutableMultiSet
 
countSubSets(Collection<?>) - Method in interface org.gcn.plinguacore.util.MultiSet
counts the number of subsets
createAbstractPsystemFactory(String) - Static method in class org.gcn.plinguacore.util.psystem.factory.AbstractPsystemFactory
Creates an AbstractPsystemFactory instance according to the model name given
createBasicRule(boolean, LeftHandRule, RightHandRule) - Method in interface org.gcn.plinguacore.util.psystem.rule.AbstractRuleFactory
 
createBasicRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.cellLike.CellLikeRuleFactory
 
createBasicRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRuleFactory
 
createBasicRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TissueLikeRuleFactory
 
createBasicRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TSCSRuleFactory
 
createConstantRule(boolean, LeftHandRule, RightHandRule, float) - Method in interface org.gcn.plinguacore.util.psystem.rule.AbstractRuleFactory
 
createConstantRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.cellLike.CellLikeRuleFactory
 
createConstantRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRuleFactory
 
createConstantRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TissueLikeRuleFactory
 
createConstantRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TSCSRuleFactory
 
createDoubleCommunicationRule(boolean, LeftHandRule, RightHandRule) - Method in interface org.gcn.plinguacore.util.psystem.rule.AbstractRuleFactory
 
createDoubleCommunicationRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.cellLike.CellLikeRuleFactory
 
createDoubleCommunicationRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRuleFactory
 
createDoubleCommunicationRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TissueLikeRuleFactory
 
createDoubleCommunicationRule(boolean, LeftHandRule, RightHandRule) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TSCSRuleFactory
 
createInfoMessage(String, int) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createInfoMessage(String, MsgInterval, int) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createInfoMessage(String, String, MsgInterval, int) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createInfoMessage(String, String, int) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createInputParserThroughExtension(String) - Method in class org.gcn.plinguacore.parser.AbstractParserFactory
Looks if there's any input format whose files correspond to the extension given and returns an input format which parses that format
createInternalErrorMessage(String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createInternalErrorMessage(String, String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createInternalErrorMsg(String) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createLexicalErrorMessage(String) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createLexicalErrorMessage(String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createLexicalErrorMessage(String, String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createParser(String) - Method in class org.gcn.plinguacore.parser.AbstractParserFactory
Creates a IParser instance according to the given format
createPriorityRule(boolean, LeftHandRule, RightHandRule, int) - Method in interface org.gcn.plinguacore.util.psystem.rule.AbstractRuleFactory
 
createPriorityRule(boolean, LeftHandRule, RightHandRule, int) - Method in class org.gcn.plinguacore.util.psystem.rule.cellLike.CellLikeRuleFactory
 
createPriorityRule(boolean, LeftHandRule, RightHandRule, int) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRuleFactory
 
createPriorityRule(boolean, LeftHandRule, RightHandRule, int) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TissueLikeRuleFactory
 
createPriorityRule(boolean, LeftHandRule, RightHandRule, int) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TSCSRuleFactory
 
createPsystem() - Method in class org.gcn.plinguacore.util.psystem.factory.AbstractPsystemFactory
 
createPsystem() - Method in interface org.gcn.plinguacore.util.psystem.factory.IPsystemFactory
 
createSemanticsErrorMessage(String) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createSemanticsErrorMessage(String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createSemanticsErrorMessage(String, String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
CreateSimulator - Class in org.gcn.plinguacore.simulator
This class provides support for creating simulators according to the options defined
CreateSimulator(String) - Constructor for class org.gcn.plinguacore.simulator.CreateSimulator
Creates a new instance which creates simulators for the model indicated by its name
createSimulator(boolean, boolean, String, Psystem) - Method in class org.gcn.plinguacore.simulator.CreateSimulator
Creates a new simulator, which specific classes are identified by an ID.
createSimulator(boolean, boolean, Psystem) - Method in class org.gcn.plinguacore.simulator.CreateSimulator
Creates a new simulator.
createSimulator(boolean, boolean, String) - Method in class org.gcn.plinguacore.util.psystem.Psystem
Creates a simulator to simulate this P-system.
createSimulator(boolean, boolean) - Method in class org.gcn.plinguacore.util.psystem.Psystem
Creates a simulator to simulate this P-system.
createStochasticRule(boolean, LeftHandRule, RightHandRule, float) - Method in interface org.gcn.plinguacore.util.psystem.rule.AbstractRuleFactory
 
createStochasticRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.cellLike.CellLikeRuleFactory
 
createStochasticRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.spiking.SpikingRuleFactory
 
createStochasticRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TissueLikeRuleFactory
 
createStochasticRule(boolean, LeftHandRule, RightHandRule, float) - Method in class org.gcn.plinguacore.util.psystem.rule.tissueLike.TSCSRuleFactory
 
createSyntacticErrorMessage(String) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createSyntacticErrorMessage(String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createSyntacticErrorMessage(String, String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createWarningMessage(String) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createWarningMessage(String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createWarningMessage(String, String, MsgInterval) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
createWarningMessage(String, String) - Static method in class org.gcn.plinguacore.parser.input.messages.InputParserMsgFactory
 
CreationPsystemFactory - Class in org.gcn.plinguacore.simulator.cellLike.activeMembranes
This class is intended to give support for P-systems in which only membrane creation, evolution, dissolution and communication are allowed
currentToken - Variable in exception org.gcn.plinguacore.parser.input.plingua.ParseException
This is the last token that has been consumed successfully.
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