A B C D E F G H I J K L M N O P Q R S T U V W X Y Z _

I

IAbout - interface org.primordion.xholon.io.IAbout.

Display brief information about Xholon and the current Xholon application.

IActivity - interface org.primordion.xholon.base.IActivity.

An activity is a type of behavior.

IApplication - interface org.primordion.xholon.app.IApplication.

Every Xholon application proceeds through three phases, which are declared in this interface: (1) initialize, (2) process, (3) wrapup.

IAttribute - interface org.primordion.xholon.base.IAttribute.

Attribute.

IBioXholon - interface org.primordion.cellontro.base.IBioXholon.

An instance of IBioXholon represents some biological entity, and exists as a node in a composite structure hierarchy tree.

IBioXholonClass - interface org.primordion.cellontro.base.IBioXholonClass.

ICellontro2Sbml - interface org.primordion.xholon.io.ICellontro2Sbml.

Transforms a Cellontro model to SBML format.

IChartViewer - interface org.primordion.xholon.io.IChartViewer.

This interface should be implemented by concrete classes that capture data and display the data in a chart.

IContainmentHierarchy - interface org.primordion.xholon.base.IContainmentHierarchy.

A ContainmentHierarchy represents a hierarchy (tree) of Xholon nodes contained within other Xholon nodes.

ICtrnn - interface org.primordion.ctrnn.base.ICtrnn.

Continuous-Time Recurrent Neural Network (CTRNN).

IGraphicalNetworkViewer - interface org.primordion.xholon.io.IGraphicalNetworkViewer.

Interface for a graphical network viewer, for example AbstractNetworkViewerJung.

IGraphicalTreeViewer - interface org.primordion.xholon.io.IGraphicalTreeViewer.

Interface for a graphical tree viewer, for example TreeViewerJung.

IGrid - interface org.primordion.xholon.base.IGrid.

A grid is a structure containing M rows and N columns (gridCells).

IGridPanel - interface org.primordion.xholon.io.IGridPanel.

A graphic panel in which to display 2D grids.

IHistogramViewer - interface org.primordion.xholon.io.IHistogramViewer.

This interface should be implemented by concrete classes that capture data, and display the data in a histogram.

IInheritanceHierarchy - interface org.primordion.xholon.base.IInheritanceHierarchy.

An InheritanceHierarchy represents a hierarchy (tree) of XholonClass nodes that inherit from other XholonClass nodes.

IIntegration - class org.primordion.xholon.base.IIntegration.

Numerical integration package.

IIntegration() - Constructor for class org.primordion.xholon.base.IIntegration

IInteraction - interface org.primordion.xholon.base.IInteraction.

UML 2.0 Interaction.

IMembraneComputing - interface org.primordion.memcomp.base.IMembraneComputing.

Membrane Computing.

IMessage - interface org.primordion.xholon.base.IMessage.

ROOM/UML2 message.

INCREMENT_DATE - Static variable in class org.primordion.xholon.samples.XhWatch

INCREMENT_DATE - Static variable in class org.primordion.xholon.xmiapps.XhWatch

INCREMENT_DAY - Static variable in class org.primordion.xholon.samples.XhWatch

INCREMENT_DAY - Static variable in class org.primordion.xholon.xmiapps.XhWatch

INCREMENT_HOUR - Static variable in class org.primordion.xholon.samples.XhWatch

INCREMENT_HOUR - Static variable in class org.primordion.xholon.xmiapps.XhWatch

INCREMENT_MIN - Static variable in class org.primordion.xholon.samples.XhWatch

INCREMENT_MIN - Static variable in class org.primordion.xholon.xmiapps.XhWatch

INCREMENT_MONTH - Static variable in class org.primordion.xholon.samples.XhWatch

INCREMENT_MONTH - Static variable in class org.primordion.xholon.xmiapps.XhWatch

INCREMENT_SEC - Static variable in class org.primordion.xholon.samples.XhWatch

INCREMENT_SEC - Static variable in class org.primordion.xholon.xmiapps.XhWatch

IObservable - interface org.primordion.xholon.base.IObservable.

An Observable is a Xholon that is observed by another Xholon.

IPatch - interface org.primordion.xholon.base.IPatch.

A patch is an agent in the turtle mechanism.

IPort - interface org.primordion.xholon.base.IPort.

IPort defines the abstract services that ports provide.

IPortInterface - interface org.primordion.xholon.base.IPortInterface.

A port interface is either a provided or a required interface for one or more ports.

IQueue - interface org.primordion.xholon.base.IQueue.

This is a generic Queue data structure that can be used to store references to any type of data.

IReflection - interface org.primordion.xholon.base.IReflection.

Reflection supports a metadata capability.

ISbml2Cellontro - interface org.primordion.xholon.io.ISbml2Cellontro.

ISbml2Cellontro transforms SBML files into Xholon/Cellontro model files.

ISignal - interface org.primordion.xholon.base.ISignal.

A signal is just an int, that identifies a type of Message.

ISnapshot - interface org.primordion.xholon.io.ISnapshot.

Take a shapshot of an entire Xholon tree.

IStateMachineEntity - interface org.primordion.xholon.base.IStateMachineEntity.

A state machine entity is any XholonClass that has to do with state machines.

ITreeNodeFactory - interface org.primordion.xholon.base.ITreeNodeFactory.

A tree node factory creates and manages Xholon tree nodes.

ITurtle - interface org.primordion.xholon.base.ITurtle.

A turtle is an agent in the turtle mechanism.

ITurtlePatchColor - interface org.primordion.xholon.base.ITurtlePatchColor.

A turtle or patch is assigned a color in the turtle mechanism.

IViewer - interface org.primordion.xholon.io.IViewer.

All Xholon viewer interfaces should extend this interface.

IVrmlColor - interface org.primordion.xholon.io.vrml.IVrmlColor.

VRML IVrmlColor.

IVrmlWriter - interface org.primordion.xholon.io.vrml.IVrmlWriter.

VRML IVrmlWriter.

IXHOLON - Static variable in class org.primordion.xholon.base.XPathConstants

The Xholon data type.

IXPath - interface org.primordion.xholon.base.IXPath.

The XML Path Language (XPath) is an internet W3C standard, that defines how to locate nodes in a tree.

IXholon - interface org.primordion.xholon.base.IXholon.

A Xholon is a node within a hierarchical tree structure, and builds on the capabilities of tree nodes.

IXholon2Qep - interface org.primordion.xholon.io.IXholon2Qep.

Output Java file(s) in Quantum Event Processor (QEP) format.

IXholon2Scxml - interface org.primordion.xholon.io.IXholon2Scxml.

Output an XML file in SCXML format.

IXholon2Smc - interface org.primordion.xholon.io.IXholon2Smc.

Output an XML file in SMC format.

IXholonClass - interface org.primordion.xholon.base.IXholonClass.

A XholonClass is a concrete subclass of TreeNode.

IXholonTime - interface org.primordion.xholon.base.IXholonTime.

Handle time in a Xholon application.

IXmi2Xholon - interface org.primordion.xholon.io.IXmi2Xholon.

Transform XMI-formatted files into Xholon format.

IfCarryingFood - class org.primordion.ealontro.ec.app.antforaging.IfCarryingFood.

IfCarryingFood() - Constructor for class org.primordion.ealontro.ec.app.antforaging.IfCarryingFood

IfFoodHere - class org.primordion.ealontro.ec.app.antforaging.IfFoodHere.

IfFoodHere() - Constructor for class org.primordion.ealontro.ec.app.antforaging.IfFoodHere

IleCE - Static variable in interface org.primordion.cellontro.app.CeLife

IndependentVariableCE - Static variable in interface org.primordion.dynsys.app.CeFibonacci

IndicatorCE - Static variable in interface org.primordion.xholon.xmiapps.CeElevator

IndicatorCE - Static variable in interface org.primordion.xholon.xmiappsTc.CeElevator

InferiorMesentericGanglionCE - Static variable in interface org.primordion.cellontro.app.CeLife

InheritanceHierarchy - class org.primordion.xholon.base.InheritanceHierarchy.

An InheritanceHierarchy represents a hierarchy (tree) of XholonClass nodes that inherit from other XholonClass nodes.

InheritanceHierarchy() - Constructor for class org.primordion.xholon.base.InheritanceHierarchy

InitialNodeCE - Static variable in interface org.primordion.xholon.common.mechanism.CeUMLActivityEntity

InjectButtonCE - Static variable in interface org.primordion.xholon.xmiapps.CeWatch

InorganicPrecursorCE - Static variable in interface org.primordion.cellontro.app.CeLife

InputPinCE - Static variable in interface org.primordion.xholon.common.mechanism.CeUMLActionEntity

InterNeuronCE - Static variable in interface org.primordion.cellontro.app.CeLife

Interaction - class org.primordion.xholon.base.Interaction.

UML 2.0 Interaction.

Interaction() - Constructor for class org.primordion.xholon.base.Interaction

Constructor.

InteractionsCE - Static variable in interface org.primordion.xholon.common.viewer.CeInteractions

InterestCE - Static variable in interface org.primordion.dynsys.app.CeInterest

InterestRateCE - Static variable in interface org.primordion.dynsys.app.CeInterest

InterestSystemCE - Static variable in interface org.primordion.dynsys.app.CeInterest

IntermediateFilamentCE - Static variable in interface org.primordion.cellontro.app.CeLife

InternalSpaceCE - Static variable in interface org.primordion.cellontro.app.CeLife

InvocationActionCE - Static variable in interface org.primordion.xholon.common.mechanism.CeUMLActionEntity

IonCE - Static variable in interface org.primordion.cellontro.app.CeLife

Irr_Sb1_Pr1_Ac0_In0_Co0 - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

Irr_Sb1_Pr1_Ac0_In0_CoN - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

Irr_Sb1_Pr1_Ac0_In1_CoN - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

Irr_Sb1_Pr1_Ac1_In0_CoN - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

Irr_Sb1_Pr1_AcN_InN_CoN - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

Irr_Sb1_Pr2_Ac0_In0_Co0 - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

Irr_Sb2_Pr1_Ac0_In0_CoN - Static variable in interface org.primordion.cellontro.base.IBioXholonClass

IsocitrateCE - Static variable in interface org.primordion.cellontro.app.CeLife

IsocitrateCE - Static variable in interface org.primordion.cellontro.app.sbml.CeCellModel

IsocitrateDehydrogenaseCE - Static variable in interface org.primordion.cellontro.app.CeLife

IsocitrateDehydrogenaseCE - Static variable in interface org.primordion.cellontro.app.sbml.CeCellModel

Item - class org.primordion.user.app.Epo2.Item.

Extended Purchase Order example.

Item() - Constructor for class org.primordion.user.app.Epo2.Item

ItemCE - Static variable in interface org.primordion.user.app.Epo2.CeEpo2

inCone(double, double) - Method in interface org.primordion.xholon.base.ITurtle

Return agents that fall within a cone defined by the distance and angle .

inCone(double, double) - Method in class org.primordion.xholon.base.Turtle

inOrderPrint(int) - Method in interface org.primordion.xholon.base.IXholon

In-order print.

inOrderPrint(int) - Method in interface org.primordion.xholon.base.IXholonClass

inOrderPrint(int) - Method in class org.primordion.xholon.base.Xholon

inOrderPrint(int) - Method in class org.primordion.xholon.base.XholonClass

inRadius(int) - Method in interface org.primordion.xholon.base.IPatch

Return a list of all neighbors (patches) within the specified radius.

inRadius(int, int) - Method in interface org.primordion.xholon.base.IPatch

Return a list of all neighbors (patches) within the specified radius.

inRadius(int) - Method in interface org.primordion.xholon.base.ITurtle

Return a list of all neighbors (turtles) within the specified radius.

inRadius(int, int) - Method in interface org.primordion.xholon.base.ITurtle

Return a list of all neighbors (turtles) within the specified radius.

inRadius(int) - Method in class org.primordion.xholon.base.Patch

This works for a torus or grid where each cell has 8 neighbors.

inRadius(int, int) - Method in class org.primordion.xholon.base.Patch

This works for a torus or grid where each cell has 8 neighbors.

inRadius(int) - Method in class org.primordion.xholon.base.Turtle

inRadius(int, int) - Method in class org.primordion.xholon.base.Turtle

inRadius(int) - Method in class org.primordion.xholon.tutorials.StupidModel.HabitatCellStupidModel11

Return a filtered list of all neighbors within the specified radius.

inRadius(int) - Method in class org.primordion.xholon.tutorials.StupidModel.HabitatCellStupidModel12

Return a filtered list of all neighbors within the specified radius.

inRadius(int) - Method in class org.primordion.xholon.tutorials.StupidModel.HabitatCellStupidModel13

Return a filtered list of all neighbors within the specified radius.

inRadius(int) - Method in class org.primordion.xholon.tutorials.StupidModel.HabitatCellStupidModel14

Return a filtered list of all neighbors within the specified radius.

inRadius(int) - Method in class org.primordion.xholon.tutorials.StupidModel.HabitatCellStupidModel15

Return a filtered list of all neighbors within the specified radius.

inRadius(int, boolean) - Method in class org.primordion.xholon.tutorials.StupidModel.HabitatCellStupidModel16

Return a filtered list of all neighbors within the specified radius.

incPheneVal(double) - Method in class org.primordion.cellontro.app.XhAbstractSbml

incPheneVal(double) - Method in class org.primordion.cellontro.app.XhCell

incPheneVal(double) - Method in class org.primordion.cellontro.app.XhCellAutop

incPheneVal(double) - Method in class org.primordion.cellontro.app.XhLife

incPheneVal(double) - Method in interface org.primordion.cellontro.base.IBioXholon

Increment the phene value by incAmount.

incRawFitness(int) - Method in class org.primordion.ealontro.app.XhAntForaging

Increase the raw fitness of this GeneticProgram.

incVal(double) - Method in class org.primordion.ealontro.app.XhAntTrail

incVal(double) - Method in class org.primordion.ealontro.app.XhCartCentering

incVal(double) - Method in class org.primordion.ealontro.app.XhEcjAntTrail

incVal(double) - Method in class org.primordion.ealontro.app.XhTutorial4

incVal(double) - Method in class org.primordion.ealontro.ec.app.cartcentering.XhEcjCartCentering

incVal(double) - Method in class org.primordion.user.app.Epo2.XhEpo2

incVal(double) - Method in class org.primordion.user.app.XhBrenda

incVal(double) - Method in class org.primordion.xholon.base.Attribute.Attribute_double

incVal(double) - Method in class org.primordion.xholon.base.Attribute.Attribute_float

incVal(int) - Method in class org.primordion.xholon.base.Attribute.Attribute_int

incVal(int) - Method in class org.primordion.xholon.base.Attribute.Attribute_long

incVal(int) - Method in class org.primordion.xholon.base.Attribute.Attribute_short

incVal(double) - Method in interface org.primordion.xholon.base.IXholon

Increment an internal double value by a specified amount.

incVal(int) - Method in interface org.primordion.xholon.base.IXholon

Increment an internal int value by a specified amount.

incVal(double) - Method in class org.primordion.xholon.base.Xholon

incVal(int) - Method in class org.primordion.xholon.base.Xholon

incVal(double) - Method in class org.primordion.xholon.tutorials.rcs.XhRcs1

incVal(double) - Method in class org.primordion.xholon.tutorials.rcs.XhRcsTemp

incVal(double) - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_FSM

incVal(int) - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_FSM_Grid

incVal(double) - Method in class org.primordion.xholon.xmiapps.Xh__XholonTemplate__

includeCE - Static variable in interface org.primordion.cellontro.app.CeLife

includeCE - Static variable in interface org.primordion.dynsys.app.CeGravity1

includeCE - Static variable in interface org.primordion.dynsys.app.CeInterest

includeCE - Static variable in interface org.primordion.dynsys.app.CeTrain

includeCE - Static variable in interface org.primordion.user.app.CeTurtleExample1

includeCE - Static variable in interface org.primordion.user.app.WolfSheepGrass.CeWolfSheepGrass

includeCE - Static variable in interface org.primordion.xholon.samples.Ce1dSimple

includeCE - Static variable in interface org.primordion.xholon.samples.CeCombo

includeCE - Static variable in interface org.primordion.xholon.tutorials.rcs.CeRcs1

includeCE - Static variable in interface org.primordion.xholon.tutorials.rcs.CeRcs2

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeElevator

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeFsm06ex1_Fsm

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeHelloWorldTutorial

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeHelloWorldTutorial_multiWorld

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeHelloWorldTutorial_plus

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeHelloWorldTutorial_universe

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeProvidedRequiredTest

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeRcs_GP_FSM

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeRcs_GP_FSM_Grid

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeRcs_GP_MM

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeRcs_GP_MM_NoSymbols

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeStopWatch

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeStopWatch_Xhym

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeTestFsm

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeTestFsmForkJoin

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeTestFsmHistory

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeTestFsmJunction

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeTestFsmOrthogonal

includeCE - Static variable in interface org.primordion.xholon.xmiapps.CeWatch

includeCE - Static variable in interface org.primordion.xholon.xmiapps.Ce__XholonTemplate__

includeCE - Static variable in interface org.primordion.xholon.xmiappsArgoUML.CeHelloWorldTutorial

includeCE - Static variable in interface org.primordion.xholon.xmiappsTc.CeElevator

includeCE - Static variable in interface org.primordion.xholon.xmiappsTc.CeHelloWorldTutorial

includeCE - Static variable in interface org.primordion.xholon.xmiappsTc.CeHelloWorldTutorial_multiWorld

includeCE - Static variable in interface org.primordion.xholon.xmiappsTc.CeStateMachineOnly

includeCE - Static variable in interface org.primordion.xholon.xmiappsTc.CeTestFsm

includeCE - Static variable in interface org.primordion.xholon.xmiappsTcSysML.CeHelloWorldTutorialSysML

infoM - Static variable in class org.primordion.xholon.base.Msg

information() - Method in class org.primordion.xholon.app.Application

information() - Method in interface org.primordion.xholon.app.IApplication

Display detailed information about the application.

init() - Method in class org.primordion.xholon.io.vrml.VrmlBuffer

Initialize the internal buffer.

initControl() - Method in class org.primordion.xholon.app.Application

initControl() - Method in interface org.primordion.xholon.app.IApplication

Initialize the control aspects of the application.

initControl() - Method in class org.primordion.xholon.tutorials.AppHelloWorld_NoXml

Disable control xholons.

initGridPanel(IXholon) - Method in class org.primordion.xholon.io.GridPanel

initGridPanel(IXholon) - Method in interface org.primordion.xholon.io.IGridPanel

Initialize the GridPanel.

initGui(Object) - Method in class org.primordion.xholon.app.Application

initGui(Object) - Method in interface org.primordion.xholon.app.IApplication

Initialize the GUI.

initStatics() - Method in interface org.primordion.xholon.base.IXholon

Initialize any static varibles that can't be statically initialized.

initStatics() - Method in class org.primordion.xholon.base.Xholon

initStatics() - Method in class org.primordion.xholon.tutorials.rcs.XhRcs2

initStatics() - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_MM

initViewers() - Method in class org.primordion.xholon.app.Application

initViewers() - Method in interface org.primordion.xholon.app.IApplication

Initialize any View tools to be used by the application.

initWhenMoved(int) - Method in interface org.primordion.xholon.base.ITurtle

Initialize the whenMoved variable.

initWhenMoved(int) - Method in class org.primordion.xholon.base.Turtle

initialBugSizeMean - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel14

initialBugSizeMean - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel15

initialBugSizeMean - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel16

initialBugSizeMean - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel16nl

initialBugSizeSD - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel14

initialBugSizeSD - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel15

initialBugSizeSD - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel16

initialBugSizeSD - Static variable in class org.primordion.xholon.tutorials.StupidModel.BugStupidModel16nl

initialNumberSheep - Static variable in class org.primordion.user.app.WolfSheepGrass.WolfSheep

initialNumberWolves - Static variable in class org.primordion.user.app.WolfSheepGrass.WolfSheep

initialize(String) - Method in class org.primordion.cellontro.app.AppCell

initialize(String) - Method in class org.primordion.cellontro.app.AppLife

initialize(String) - Method in class org.primordion.cellontro.app.AppSbml

initialize() - Method in class org.primordion.cellontro.app.XhAbstractSbml

initialize() - Method in class org.primordion.cellontro.app.XhCell

initialize() - Method in class org.primordion.cellontro.app.XhCellAutop

initialize() - Method in class org.primordion.cellontro.app.XhLife

initialize() - Method in class org.primordion.cellontro.base.BioXholonClass

initialize(String, String, IXholon) - Method in class org.primordion.cellontro.io.sbml.Cellontro2Sbml

initialize(String) - Method in class org.primordion.cellontro.io.sbml.Sbml2Cellontro

initialize() - Method in class org.primordion.ctrnn.base.XhAbstractCtrnn

initialize() - Method in class org.primordion.dynsys.app.XhFibonacci

initialize() - Method in class org.primordion.dynsys.app.XhGravity1

initialize() - Method in class org.primordion.dynsys.app.XhInterest

initialize() - Method in class org.primordion.dynsys.app.XhTrain

initialize(String) - Method in class org.primordion.ealontro.app.AppAntForaging

initialize(String) - Method in class org.primordion.ealontro.app.AppAntTrail

initialize(String) - Method in class org.primordion.ealontro.app.AppCartCentering

initialize(String) - Method in class org.primordion.ealontro.app.AppEcj

initialize(String) - Method in class org.primordion.ealontro.app.AppTutorial4

initialize() - Method in class org.primordion.ealontro.app.XhAntForaging

initialize() - Method in class org.primordion.ealontro.app.XhAntTrail

initialize() - Method in class org.primordion.ealontro.app.XhCartCentering

initialize() - Method in class org.primordion.ealontro.app.XhEcjAntTrail

initialize() - Method in class org.primordion.ealontro.app.XhEcjTutorial4

initialize() - Method in class org.primordion.ealontro.app.XhTutorial4

initialize() - Method in class org.primordion.ealontro.ec.app.cartcentering.XhEcjCartCentering

initialize() - Method in class org.primordion.memcomp.app.XhFsm06ex1_Fsm

initialize() - Method in class org.primordion.memcomp.base.XhAbstractBraneCalc

initialize() - Method in class org.primordion.memcomp.base.XhAbstractMemComp

initialize(String) - Method in class org.primordion.user.app.AppBrenda

initialize(String) - Method in class org.primordion.user.app.AppTurtleExample1

initialize(String) - Method in class org.primordion.user.app.Epo2.AppEpo2

initialize() - Method in class org.primordion.user.app.Epo2.XhEpo2

initialize() - Method in class org.primordion.user.app.TurtleExample1

initialize(String) - Method in class org.primordion.user.app.WolfSheepGrass.AppWolfSheepGrass

initialize() - Method in class org.primordion.user.app.WolfSheepGrass.WolfSheep

initialize() - Method in class org.primordion.user.app.WolfSheepGrass.XhWolfSheepGrass

initialize() - Method in class org.primordion.user.app.XhBrenda

initialize() - Method in class org.primordion.user.app.XhTurtleExample1

initialize(String) - Method in class org.primordion.xholon.app.Application

initialize(String) - Method in interface org.primordion.xholon.app.IApplication

Initialize the application.

initialize() - Method in class org.primordion.xholon.base.AbstractGrid

initialize() - Method in class org.primordion.xholon.base.Control

initialize() - Method in interface org.primordion.xholon.base.IXholon

Initialize the tree node.

initialize() - Method in class org.primordion.xholon.base.StateMachineEntity

initialize() - Method in class org.primordion.xholon.base.Xholon

initialize() - Method in class org.primordion.xholon.base.XholonClass

initialize() - Method in class org.primordion.xholon.base.XholonWithPorts

initialize(IXholon, int) - Method in class org.primordion.xholon.io.ChartViewerGnuplot

initialize(IXholon, int) - Method in class org.primordion.xholon.io.ChartViewerJFreeChart

Initialize the chart viewer.

initialize(IXholon, IXholon, IXholonClass, int, int) - Method in class org.primordion.xholon.io.HistogramViewerGnuplot

This method may not be useful for the Gnuplot concrete class.

initialize(IXholon, IXholon, IXholonClass, int, int, String, String, int) - Method in class org.primordion.xholon.io.HistogramViewerGnuplot

Initialize the histogram viewer.

initialize(IXholon, IXholon, IXholonClass, int, int) - Method in class org.primordion.xholon.io.HistogramViewerJFreeChart

initialize(String, String, IXholon) - Method in interface org.primordion.xholon.io.ICellontro2Sbml

Initialize.

initialize(IXholon, int) - Method in interface org.primordion.xholon.io.IChartViewer

Initialize the chart viewer.

initialize(IXholon, IXholon, IXholonClass, int, int) - Method in interface org.primordion.xholon.io.IHistogramViewer

Initialize the histogram viewer.

initialize(String) - Method in interface org.primordion.xholon.io.ISbml2Cellontro

Initialize the reader, document and model.

initialize(String, String, IXholon) - Method in interface org.primordion.xholon.io.IXholon2Qep

Initialize.

initialize(String, String, IXholon) - Method in interface org.primordion.xholon.io.IXholon2Scxml

Initialize.

initialize(String, String, IXholon) - Method in interface org.primordion.xholon.io.IXholon2Smc

Initialize.

initialize(String, String, IXholon) - Method in class org.primordion.xholon.io.Xholon2Qep

initialize(String, String, IXholon) - Method in class org.primordion.xholon.io.Xholon2Scxml

initialize(String, String, IXholon) - Method in class org.primordion.xholon.io.Xholon2Smc

initialize() - Method in class org.primordion.xholon.samples.Xh09SpatialGames

initialize() - Method in class org.primordion.xholon.samples.Xh1dSimple

initialize() - Method in class org.primordion.xholon.samples.XhCollisions

initialize() - Method in class org.primordion.xholon.samples.XhCombo

initialize() - Method in class org.primordion.xholon.samples.XhGameOfLife

initialize() - Method in class org.primordion.xholon.samples.XhGeneric

initialize() - Method in class org.primordion.xholon.samples.XhHex

initialize() - Method in class org.primordion.xholon.samples.XhPingPong

initialize() - Method in class org.primordion.xholon.samples.XhTestFsm

initialize() - Method in class org.primordion.xholon.samples.XhTestFsmKW

initialize() - Method in class org.primordion.xholon.samples.XhTestFsmOrthog

initialize() - Method in class org.primordion.xholon.samples.XhTestFsmOrthogKW

initialize() - Method in class org.primordion.xholon.samples.XhWatch

initialize(String) - Method in class org.primordion.xholon.tutorials.AppHelloWorld_NoXml

initialize() - Method in class org.primordion.xholon.tutorials.XhHelloWorld

initialize() - Method in class org.primordion.xholon.tutorials.XhHelloWorld_NoXml

initialize() - Method in class org.primordion.xholon.tutorials.XhHelloWorld_TestTime

initialize() - Method in class org.primordion.xholon.tutorials.XhHelloWorld_str

initialize() - Method in class org.primordion.xholon.tutorials.rcs.XhRcs1

initialize() - Method in class org.primordion.xholon.tutorials.rcs.XhRcs2

initialize() - Method in class org.primordion.xholon.tutorials.rcs.XhRcsTemp

initialize(String) - Method in class org.primordion.xholon.xmiapps.App__XholonTemplate__

initialize() - Method in class org.primordion.xholon.xmiapps.XhElevator

initialize() - Method in class org.primordion.xholon.xmiapps.XhFsm06ex1_Fsm

initialize() - Method in class org.primordion.xholon.xmiapps.XhHelloWorldTutorial

initialize() - Method in class org.primordion.xholon.xmiapps.XhHelloWorldTutorial_multiWorld

initialize() - Method in class org.primordion.xholon.xmiapps.XhHelloWorldTutorial_plus

initialize() - Method in class org.primordion.xholon.xmiapps.XhHelloWorldTutorial_universe

initialize() - Method in class org.primordion.xholon.xmiapps.XhProvidedRequiredTest

initialize() - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_FSM

initialize() - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_FSM_Grid

initialize() - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_MM

initialize() - Method in class org.primordion.xholon.xmiapps.XhRcs_GP_MM_NoSymbols

initialize() - Method in class org.primordion.xholon.xmiapps.XhStopWatch

initialize() - Method in class org.primordion.xholon.xmiapps.XhStopWatch_Xhym

initialize() - Method in class org.primordion.xholon.xmiapps.XhTestFsm

initialize() - Method in class org.primordion.xholon.xmiapps.XhTestFsmForkJoin

initialize() - Method in class org.primordion.xholon.xmiapps.XhTestFsmHistory

initialize() - Method in class org.primordion.xholon.xmiapps.XhTestFsmJunction

initialize() - Method in class org.primordion.xholon.xmiapps.XhTestFsmOrthogonal

initialize() - Method in class org.primordion.xholon.xmiapps.Xh__XholonTemplate__

initialize() - Method in class org.primordion.xholon.xmiappsTc.XhElevator

initialize() - Method in class org.primordion.xholon.xmiappsTc.XhHelloWorldTutorial

initialize() - Method in class org.primordion.xholon.xmiappsTc.XhHelloWorldTutorial_multiWorld

initialize() - Method in class org.primordion.xholon.xmiappsTc.XhStateMachineOnly

initialize() - Method in class org.primordion.xholon.xmiappsTc.XhTestFsm

initialize() - Method in class org.primordion.xholon.xmiappsTcSysML.XhHelloWorldTutorialSysML

initializeStateMachines() - Static method in class org.primordion.xholon.base.StateMachineEntity

Initialize all state machines.

input - Variable in class org.primordion.ctrnn.base.XhAbstractCtrnn

input - Variable in class org.primordion.ealontro.ec.app.antforaging.AntForaging

input - Variable in class org.primordion.ealontro.ec.app.cartcentering.CartCentering

insertAfter(IXholon) - Method in interface org.primordion.xholon.base.IXholon

Insert this node after its new previous sibling node.

insertAfter(IXholon) - Method in class org.primordion.xholon.base.Xholon

insertBefore(IXholon) - Method in interface org.primordion.xholon.base.IXholon

Insert this node before its new next sibling node.

insertBefore(IXholon) - Method in class org.primordion.xholon.base.Xholon

insertFirstChild(IXholon) - Method in interface org.primordion.xholon.base.IXholon

Insert this node as the first child of its new parent node.

insertFirstChild(IXholon) - Method in class org.primordion.xholon.base.Xholon

interaction - Static variable in class org.primordion.xholon.base.Xholon

interactionsEnabled - Static variable in class org.primordion.xholon.base.Xholon

invokeDataPlotter() - Method in class org.primordion.xholon.app.Application

invokeDataPlotter() - Method in interface org.primordion.xholon.app.IApplication

Invoke the data plotter.

invokeDataPlotter() - Method in class org.primordion.xholon.xmiapps.AppElevator_ShowStates

invokeDataPlotter() - Method in class org.primordion.xholon.xmiappsTc.AppElevator

invokeGraphicalNetworkViewer(IXholon, String) - Method in class org.primordion.xholon.app.Application

invokeGraphicalNetworkViewer() - Method in class org.primordion.xholon.app.Application

invokeGraphicalNetworkViewer() - Method in interface org.primordion.xholon.app.IApplication

Invoke the graphical network viewer.

invokeGraphicalNetworkViewer(IXholon, String) - Method in interface org.primordion.xholon.app.IApplication

Invoke the graphical network viewer.

invokeGraphicalTreeViewer(IXholon, String) - Method in class org.primordion.xholon.app.Application

invokeGraphicalTreeViewer() - Method in class org.primordion.xholon.app.Application

invokeGraphicalTreeViewer() - Method in interface org.primordion.xholon.app.IApplication

Invoke the graphical tree viewer.

invokeGraphicalTreeViewer(IXholon, String) - Method in interface org.primordion.xholon.app.IApplication

Invoke the graphical tree viewer.

invokeHistogramPlotter() - Method in class org.primordion.xholon.app.Application

invokeHistogramPlotter() - Method in interface org.primordion.xholon.app.IApplication

Invoke the histogram plotter.

invokeInteraction() - Method in class org.primordion.xholon.app.Application

invokeInteraction() - Method in interface org.primordion.xholon.app.IApplication

Invoke the interaction viewer.

isActive() - Method in class org.primordion.xholon.io.AbstractNetworkViewerJung

Is this viewer active?

isActive() - Method in interface org.primordion.xholon.io.IGraphicalNetworkViewer

Is this network viewer active? If it's active then it can be refreshed.

isActiveObject() - Method in interface org.primordion.xholon.base.IXholon

Is this xholon or xholon class an Active Object?

isActiveObject() - Method in class org.primordion.xholon.base.Xholon

isActiveObject() - Method in class org.primordion.xholon.base.XholonClass

isActiveObject() - Method in class org.primordion.xholon.base.XholonWithPorts

isActiveSubState() - Method in interface org.primordion.xholon.base.IStateMachineEntity

Is this a currently active sub state of some other state or of the state machine as a whole?

isActiveSubState() - Method in class org.primordion.xholon.base.StateMachineEntity

isAlive() - Method in class org.primordion.xholon.samples.XhCombo

Is this grid cell alive?

isAlive() - Method in class org.primordion.xholon.samples.XhHex

Is this grid cell alive?

isBound(IXholon) - Method in interface org.primordion.xholon.base.IXholon

Is this port bound to anything? If a port is bound, then it will be possible for the local IXholon to send a message to, or get/set a val on, a remote IXholon.

isBound(IXholon) - Method in class org.primordion.xholon.base.Port

isBound(IXholon) - Method in class org.primordion.xholon.base.Xholon

isBound(IXholon) - Method in class org.primordion.xholon.base.XholonWithPorts

isComputationComplete() - Static method in class org.primordion.memcomp.base.XhAbstractMemComp

Is the computation complete?

isComputationSuccessful() - Static method in class org.primordion.memcomp.base.XhAbstractMemComp

Is the computation successful?

isContainer() - Method in interface org.primordion.xholon.base.IXholon

Is this xholon or xholon class a Container?

isContainer() - Method in class org.primordion.xholon.base.Xholon

isContainer() - Method in class org.primordion.xholon.base.XholonClass

isContainer() - Method in class org.primordion.xholon.base.XholonWithPorts

isEven(int) - Static method in class org.primordion.xholon.util.Misc

Is this an even number?

isExternal() - Method in interface org.primordion.xholon.base.IXholon

Is this an external node (no child or siblings).

isExternal() - Method in class org.primordion.xholon.base.Xholon

isGrabbed - Variable in class org.primordion.user.app.WolfSheepGrass.WolfSheep

isHidden - Variable in class org.primordion.xholon.base.Turtle

isInternal() - Method in interface org.primordion.xholon.base.IXholon

Is this an internal node (has child and/or siblings).

isInternal() - Method in class org.primordion.xholon.base.Xholon

isLeaf() - Method in interface org.primordion.xholon.base.IXholon

Is this a leaf node (has no child, but may have siblings).

isLeaf() - Method in class org.primordion.xholon.base.Xholon

isMathSymbol(char) - Static method in class org.primordion.xholon.util.Misc

Is this a math symbol? This method takes the place of calling if (Character.getType(symbol) == Character.MATH_SYMBOL)

isPassiveObject() - Method in interface org.primordion.xholon.base.IXholon

Is this xholon or xholon class a Passive Object?

isPassiveObject() - Method in class org.primordion.xholon.base.Xholon

isPassiveObject() - Method in class org.primordion.xholon.base.XholonClass

isPassiveObject() - Method in class org.primordion.xholon.base.XholonWithPorts

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel10

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel11

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel12

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel13

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel14

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel15

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel16

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel16nl

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel7

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel8

Is all desired or possible processing complete?

isProcessingComplete() - Static method in class org.primordion.xholon.tutorials.StupidModel.XhStupidModel9

Is all desired or possible processing complete?

isReversible() - Method in class org.primordion.cellontro.base.BioXholonClass

isReversible() - Method in interface org.primordion.cellontro.base.IBioXholonClass

Is this reaction reversible.

isRootNode() - Method in interface org.primordion.xholon.base.IXholon

Is this the root node of the tree (does it have a parent).

isRootNode() - Method in class org.primordion.xholon.base.Xholon

isdigit(int) - Static method in class org.primordion.xholon.util.Misc

Is this a digit, a value between 0 and 9.