Serialized Form

Package org.client
- Class org.client.JavaApp2Workbook extends Xholon implements Serializable
  - Serialized Fields
    - _xhnStr
```
java.lang.String _xhnStr
```
      For each type of thing that might be in a Xholon app, there's a String to capture that thing's content, and there's a boolean to record whether that thing's existence has been resolved. Once all resolvable things have been resolved, then the workbook can be saved and otherwise processed.
    - _xhnResolved
```
boolean _xhnResolved
```
    - ihStr
```
java.lang.String ihStr
```
    - ihResolved
```
boolean ihResolved
```
    - cdStr
```
java.lang.String cdStr
```
    - cdResolved
```
boolean cdResolved
```
    - cshStr
```
java.lang.String cshStr
```
    - cshResolved
```
boolean cshResolved
```
    - infoStr
```
java.lang.String infoStr
```
    - infoResolved
```
boolean infoResolved
```
    - svgStr
```
java.lang.String svgStr
```
    - svgResolved
```
boolean svgResolved
```
    - numResolvable
```
int numResolvable
```
    - numResolved
```
int numResolved
```
    - app
```
IApplication app
```
    - mode
```
java.lang.String mode
```
      "save" or "edit"
    - appName
```
java.lang.String appName
```
    - winName
```
java.lang.String winName
```
      Window name. For use with Window.open(). "_self" or "_blank"
- Class org.client.SystemMechSpecific extends Application implements Serializable
Package org.fr.lri.swingstates.debug
- Class org.fr.lri.swingstates.debug.StateMachineEvent extends java.util.EventObject implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - previousState
```
State previousState
```
    - currentState
```
State currentState
```
    - transition
```
Transition transition
```
Package org.fr.lri.swingstates.events
- Class org.fr.lri.swingstates.events.VirtualEvent extends java.util.EventObject implements Serializable
  - Serialized Fields
    - nameEvent
```
java.lang.String nameEvent
```
Package org.fr.lri.swingstates.sm
- Class org.fr.lri.swingstates.sm.State extends XholonAnonymous implements Serializable
  - Serialized Fields
    - machine
```
StateMachine machine
```
    - name
```
java.lang.String name
```
    - transitions
```
java.util.LinkedList<E> transitions
```
- Class org.fr.lri.swingstates.sm.StateMachine extends XholonAnonymous implements Serializable
  - Serialized Fields
    - currentState
```
State currentState
```
    - initialState
```
State initialState
```
    - stateInBuilt
```
State stateInBuilt
```
    - inited
```
boolean inited
```
    - active
```
boolean active
```
    - consumes
```
boolean consumes
```
    - allStates
```
java.util.Vector<E> allStates
```
- Class org.fr.lri.swingstates.sm.StateNotFoundException extends java.lang.Exception implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - stateName
```
java.lang.String stateName
```
      The name of the state not found.
- Class org.fr.lri.swingstates.sm.Transition extends XholonAnonymous implements Serializable
  - Serialized Fields
    - triggeringEvent
```
java.util.EventObject triggeringEvent
```
      The event object that has triggered this transition.
    - outputState
```
State outputState
```
      The output state of this transition.
    - inputState
```
State inputState
```
      The input state of this transition.
    - outputStateName
```
java.lang.String outputStateName
```
      The name of the output state of this transition.
Package org.fr.lri.swingstates.sm.transitions
- Class org.fr.lri.swingstates.sm.transitions.Event extends Transition implements Serializable
  - Serialized Fields
    - classEvent
```
java.lang.Class<T> classEvent
```
    - event
```
java.lang.String event
```
      The string describing the event that triggers this transition.
Package org.primordion.cellontro.app
- Class org.primordion.cellontro.app.AppCell extends Application implements Serializable
- Class org.primordion.cellontro.app.AppCellAutop extends Application implements Serializable
- Class org.primordion.cellontro.app.AppLife extends Application implements Serializable
  - Serialized Fields
    - xhMonitored
```
IXholon[] xhMonitored
```
- Class org.primordion.cellontro.app.XhCell extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - pheneVal
```
double pheneVal
```
- Class org.primordion.cellontro.app.XhCellAutop extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - pheneVal
```
double pheneVal
```
- Class org.primordion.cellontro.app.XhLife extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - pheneVal
```
double pheneVal
```
Package org.primordion.cellontro.app.sbml
- Class org.primordion.cellontro.app.sbml.AppSbml extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.cellontro.app.sbml.XhAbstractSbml extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - pheneVal
```
double pheneVal
```
- Class org.primordion.cellontro.app.sbml.XhBrusselator extends XhAbstractSbml implements Serializable
- Class org.primordion.cellontro.app.sbml.XhCellModel extends XhAbstractSbml implements Serializable
- Class org.primordion.cellontro.app.sbml.XhCircadianClock extends XhAbstractSbml implements Serializable
- Class org.primordion.cellontro.app.sbml.XhDimericMWCstiff extends XhAbstractSbml implements Serializable
- Class org.primordion.cellontro.app.sbml.XhGlycolysis extends XhAbstractSbml implements Serializable
- Class org.primordion.cellontro.app.sbml.XhYeastGlyPritchardKel extends XhAbstractSbml implements Serializable
Package org.primordion.cellontro.base
- Class org.primordion.cellontro.base.BioXholonClass extends XholonClass implements Serializable
  - Serialized Fields
    - featureType
```
int featureType
```
    - reversible
```
boolean reversible
```
    - activeObjectType
```
int activeObjectType
```
    - geneVal
```
int[] geneVal
```
Package org.primordion.cellontro.io.vrml
- Class org.primordion.cellontro.io.vrml.VrmlWriterCell extends AbstractVrmlWriter implements Serializable
  - Serialized Fields
    - nucleusVolume
```
double nucleusVolume
```
    - vColor
```
VrmlColorCell vColor
```
    - pHcolorArray
```
RGBTypeDouble[] pHcolorArray
```
    - enzymeRing
```
SFVec3f[] enzymeRing
```
    - enzymeIx
```
int enzymeIx
```
    - enzymeColorArray
```
RGBTypeDouble[] enzymeColorArray
```
    - cellLocations
```
CellLocations cellLocations
```
    - cytoLocations
```
CytoplasmLocations cytoLocations
```
Package org.primordion.ctrnn.AdapSysLab
- Class org.primordion.ctrnn.AdapSysLab.AppAdapSysLab extends AppCtrnn implements Serializable
- Class org.primordion.ctrnn.AdapSysLab.AppCtrnn extends Application implements Serializable
- Class org.primordion.ctrnn.AdapSysLab.XhAbstractCtrnn extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - activation
```
double activation
```
    - bias
```
double bias
```
    - timeConstant
```
double timeConstant
```
    - input
```
double input
```
    - output
```
double output
```
    - weight
```
double weight
```
- Class org.primordion.ctrnn.AdapSysLab.XhAdapSysLab extends XhAbstractCtrnn implements Serializable
Package org.primordion.dynsys.app
- Class org.primordion.dynsys.app.AppFibonacci extends Application implements Serializable
- Class org.primordion.dynsys.app.AppGravity1 extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.dynsys.app.AppInterest extends Application implements Serializable
- Class org.primordion.dynsys.app.AppScheffranNActor extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.dynsys.app.AppScheffranTwoActor extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.dynsys.app.AppTrain extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.dynsys.app.XhFibonacci extends XholonWithPorts implements Serializable
  - Serialized Fields
    - val
```
int val
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.dynsys.app.XhGravity1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - position
```
double position
```
    - velocity
```
double velocity
```
    - gravitationalForce
```
double gravitationalForce
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.dynsys.app.XhInterest extends XholonWithPorts implements Serializable
  - Serialized Fields
    - val
```
double val
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.dynsys.app.XhScheffranNActor extends AbstractGrid implements Serializable
  - Serialized Fields
    - value
```
double value
```
    - cost
```
double cost
```
    - f
```
double[] f
```
    - valueGoal
```
double valueGoal
```
    - k
```
double k
```
    - maxCost
```
double maxCost
```
    - tau
```
double tau
```
    - dC
```
double dC
```
    - dV
```
double dV
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.dynsys.app.XhScheffranTwoActor extends XholonWithPorts implements Serializable
  - Serialized Fields
    - value
```
double value
```
    - cost
```
double cost
```
    - f1
```
double f1
```
    - f2
```
double f2
```
    - valueGoal
```
double valueGoal
```
    - k
```
double k
```
    - maxCost
```
double maxCost
```
    - tau
```
double tau
```
    - dC
```
double dC
```
    - dV
```
double dV
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.dynsys.app.XhTrain extends XholonWithPorts implements Serializable
  - Serialized Fields
    - mass
```
double mass
```
    - force
```
double force
```
    - acceleration
```
double acceleration
```
    - velocity
```
double velocity
```
    - xPosition
```
double xPosition
```
    - friction
```
double friction
```
    - sumOfForces
```
double sumOfForces
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.dynsys.app.leakybucket
- Class org.primordion.dynsys.app.leakybucket.Appleakybucket extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.dynsys.app.leakybucket.Bucket extends Xhleakybucket implements Serializable
  - Serialized Fields
    - radius
```
IXholon radius
```
    - area
```
IXholon area
```
- Class org.primordion.dynsys.app.leakybucket.Hole extends Xhleakybucket implements Serializable
  - Serialized Fields
    - radius
```
IXholon radius
```
    - area
```
IXholon area
```
- Class org.primordion.dynsys.app.leakybucket.Outflow extends Xhleakybucket implements Serializable
  - Serialized Fields
    - g
```
IXholon g
```
    - depth
```
IXholon depth
```
    - areaOfHole
```
IXholon areaOfHole
```
    - vfr
```
IXholon vfr
```
- Class org.primordion.dynsys.app.leakybucket.Tap extends Xhleakybucket implements Serializable
  - Serialized Fields
    - vfr
```
IXholon vfr
```
- Class org.primordion.dynsys.app.leakybucket.Water extends Xhleakybucket implements Serializable
  - Serialized Fields
    - depth
```
IXholon depth
```
    - volume
```
IXholon volume
```
    - areaOfBucket
```
IXholon areaOfBucket
```
    - vfrOfInflow
```
IXholon vfrOfInflow
```
    - vfrOfOutflow
```
IXholon vfrOfOutflow
```
- Class org.primordion.dynsys.app.leakybucket.Xhleakybucket extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.dynsys.app.stability
- Class org.primordion.dynsys.app.stability.Appstability extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.dynsys.app.stability.Ball extends Xhstability implements Serializable
  - Serialized Fields
    - position
```
IXholon position
```
    - velocity
```
IXholon velocity
```
    - acceleration
```
IXholon acceleration
```
    - constant
```
IXholon constant
```
- Class org.primordion.dynsys.app.stability.BallView extends SvgClient implements Serializable
  - Serialized Fields
    - position
```
IXholon position
```
      The position of a Ball.
    - constant
```
IXholon constant
```
      The constant force exerted on the Ball.
- Class org.primordion.dynsys.app.stability.Xhstability extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.ealontro.app.AntForaging
- Class org.primordion.ealontro.app.AntForaging.AppAntForaging extends Application implements Serializable
  - Serialized Fields
    - saveSnapshots
```
boolean saveSnapshots
```
- Class org.primordion.ealontro.app.AntForaging.GridPanelAntForaging extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.ealontro.app.AntForaging.XhAntForaging extends AbstractGrid implements Serializable
  - Serialized Fields
    - hasMoved
```
boolean hasMoved
```
    - hasNest
```
boolean hasNest
```
    - pheromoneLevel
```
double pheromoneLevel
```
    - dropSize
```
double dropSize
```
    - nestDistanceCol
```
int nestDistanceCol
```
    - nestDistanceRow
```
int nestDistanceRow
```
    - food
```
int food
```
    - rawFitness
```
int rawFitness
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.ealontro.app.CartCentering
- Class org.primordion.ealontro.app.CartCentering.AppCartCentering extends Application implements Serializable
  - Serialized Fields
    - saveSnapshots
```
boolean saveSnapshots
```
- Class org.primordion.ealontro.app.CartCentering.XhCartCentering extends XholonWithPorts implements Serializable
  - Serialized Fields
    - val
```
double val
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.ealontro.app.EcjAntTrail
- Class org.primordion.ealontro.app.EcjAntTrail.AppAntTrail extends Application implements Serializable
  - Serialized Fields
    - maxFood
```
int maxFood
```
      maximum number of food pellets along the trail.
    - maxMoves
```
int maxMoves
```
      ECJ uses this to determine when to stop, so Xholon is using it too; = left + right + move
- Class org.primordion.ealontro.app.EcjAntTrail.GridPanelAntTrail extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.ealontro.app.EcjAntTrail.XhAntTrail extends AbstractGrid implements Serializable
  - Serialized Fields
    - val
```
int val
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.ealontro.app.EcjTutorial4
- Class org.primordion.ealontro.app.EcjTutorial4.AppTutorial4 extends Application implements Serializable
- Class org.primordion.ealontro.app.EcjTutorial4.XhTutorial4 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - val
```
double val
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.ef
- Class org.primordion.ef.AbstractXholon2ExternalFormat extends Xholon implements Serializable
  - Serialized Fields
    - writeToTab
```
boolean writeToTab
```
- Class org.primordion.ef.Xholon2CherryTree extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - xmlWriter
```
IXmlWriter xmlWriter
```
      The low-level XML writer.
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldQuoteLabels
```
boolean shouldQuoteLabels
```
      Whether or not labels/names should be quoted.
    - xhAttrStyle
```
int xhAttrStyle
```
      How to transform Xholon/Java attributes.
    - xhAttrReturnAll
```
boolean xhAttrReturnAll
```
      Whether to return only the attributes of the immediate concrete class (false), or attributes from all concrete classes in the inheritance hierarchy that extend from Xholon or XholonWithPorts (true).
    - writeStartDocument
```
boolean writeStartDocument
```
      Should the XML Declaration be written at the start of a new XML document.
    - writeXholonId
```
boolean writeXholonId
```
      Should the Xholon ID be written out as an XML attribute for each node.
    - writeXholonRoleName
```
boolean writeXholonRoleName
```
      Should the Xholon roleName be written out as an XML attribute for each node.
    - writePorts
```
boolean writePorts
```
      Should ports be written out as XML attributes for each node that has ports.
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
    - writeAnnotations
```
boolean writeAnnotations
```
      Should annotations be written when available for nodes.
    - annService
```
IXholon annService
```
      Annotation service.
    - writeStandardAttributes
```
boolean writeStandardAttributes
```
      Should standard attributes be written out for each node.
    - writeAttributes
```
boolean writeAttributes
```
      Should attributes be written out for each node.
- Class org.primordion.ef.Xholon2Csv extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldQuoteLabels
```
boolean shouldQuoteLabels
```
      Whether or not labels/names should be quoted.
    - xhAttrStyle
```
int xhAttrStyle
```
      How to transform Xholon/Java attributes.
    - xhAttrReturnAll
```
boolean xhAttrReturnAll
```
      Whether to return only the attributes of the immediate concrete class (false), or attributes from all concrete classes in the inheritance hierarchy that extend from Xholon or XholonWithPorts (true).
    - writeStartDocument
```
boolean writeStartDocument
```
      Should the XML Declaration be written at the start of a new XML document.
    - writeXholonId
```
boolean writeXholonId
```
      Should the Xholon ID be written out as an XML attribute for each node.
    - writeXholonRoleName
```
boolean writeXholonRoleName
```
      Should the Xholon roleName be written out as an XML attribute for each node.
    - writePorts
```
boolean writePorts
```
      Should ports be written out as XML attributes for each node that has ports.
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
    - writeAnnotations
```
boolean writeAnnotations
```
      Should annotations be written when available for nodes.
    - annService
```
IXholon annService
```
      Annotation service.
    - writeStandardAttributes
```
boolean writeStandardAttributes
```
      Should standard attributes be written out for each node.
    - writeAttributes
```
boolean writeAttributes
```
      Should attributes be written out for each node.
- Class org.primordion.ef.Xholon2GraphML extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - targetTool
```
int targetTool
```
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - nodeSb
```
java.lang.StringBuilder nodeSb
```
      The accumulating text for all GraphML node elements.
    - edgeSb
```
java.lang.StringBuilder edgeSb
```
      The accumulating text for all GraphML edge elements.
    - keyNodeSet
```
java.util.Set<E> keyNodeSet
```
      Set of all node key id's that will be added to the GraphML content. This is used to determine if a key has already been added to the keyNodeSb.
    - keyNodeSb
```
java.lang.StringBuilder keyNodeSb
```
      The accumulating text of all key elements for GraphML nodes.
    - keyEdgeSet
```
java.util.Set<E> keyEdgeSet
```
      Set of all edge key id's that will be added to the GraphML content. This is used to determine if a key has already been added to the keyEdgeSb.
    - keyEdgeSb
```
java.lang.StringBuilder keyEdgeSb
```
      The accumulating text of all key elements for GraphML edges.
- Class org.primordion.ef.Xholon2Graphviz extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - xPathLocal
```
IXPath xPathLocal
```
      A local singleton instance of XPath.
    - blanks
```
java.lang.String blanks
```
      For use with indenting by level.
    - edgeMap
```
java.util.Map<K,V> edgeMap
```
      Edges that need to be output by an ancestor node.
- Class org.primordion.ef.Xholon2HtmlForm extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldQuoteLabels
```
boolean shouldQuoteLabels
```
      Whether or not labels/names should be quoted.
    - xhAttrStyle
```
int xhAttrStyle
```
      How to transform Xholon/Java attributes.
    - xhAttrReturnAll
```
boolean xhAttrReturnAll
```
      Whether to return only the attributes of the immediate concrete class (false), or attributes from all concrete classes in the inheritance hierarchy that extend from Xholon or XholonWithPorts (true).
    - writeStartDocument
```
boolean writeStartDocument
```
      Should the XML Declaration be written at the start of a new XML document.
    - writeXholonId
```
boolean writeXholonId
```
      Should the Xholon ID be written out as an XML attribute for each node.
    - writeXholonRoleName
```
boolean writeXholonRoleName
```
      Should the Xholon roleName be written out as an XML attribute for each node.
    - writePorts
```
boolean writePorts
```
      Should ports be written out as XML attributes for each node that has ports.
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
    - writeAnnotations
```
boolean writeAnnotations
```
      Should annotations be written when available for nodes.
    - annService
```
IXholon annService
```
      Annotation service.
    - writeStandardAttributes
```
boolean writeStandardAttributes
```
      Should standard attributes be written out for each node.
    - writeAttributes
```
boolean writeAttributes
```
      Should attributes be written out for each node.
- Class org.primordion.ef.Xholon2HTModL extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldWriteToString
```
boolean shouldWriteToString
```
      Whether data should be written to a String and System.out (and thence maybe to a web browser), or to a file.
- Class org.primordion.ef.Xholon2Json extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldQuoteLabels
```
boolean shouldQuoteLabels
```
      Whether or not labels/names should be quoted.
    - xhAttrStyle
```
int xhAttrStyle
```
      How to transform Xholon/Java attributes.
    - xhAttrReturnAll
```
boolean xhAttrReturnAll
```
      Whether to return only the attributes of the immediate concrete class (false), or attributes from all concrete classes in the inheritance hierarchy that extend from Xholon or XholonWithPorts (true).
    - writeStartDocument
```
boolean writeStartDocument
```
      Should the XML Declaration be written at the start of a new XML document.
    - writeXholonId
```
boolean writeXholonId
```
      Should the Xholon ID be written out as an XML attribute for each node.
    - writeXholonRoleName
```
boolean writeXholonRoleName
```
      Should the Xholon roleName be written out as an XML attribute for each node.
    - writePorts
```
boolean writePorts
```
      Should ports be written out as XML attributes for each node that has ports.
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
    - writeAnnotations
```
boolean writeAnnotations
```
      Should annotations be written when available for nodes.
    - annService
```
IXholon annService
```
      Annotation service.
    - writeStandardAttributes
```
boolean writeStandardAttributes
```
      Should standard attributes be written out for each node.
    - writeAttributes
```
boolean writeAttributes
```
      Should attributes be written out for each node.
- Class org.primordion.ef.Xholon2MindMap extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - mmFileName
```
java.lang.String mmFileName
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - mmSb
```
java.lang.StringBuilder mmSb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
- Class org.primordion.ef.Xholon2PlantUML extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - sortRoot
```
XholonSortedNode sortRoot
```
      Root of the binary tree that sorts and counts Xholon nodes.
    - rootXholonClass
```
IXholonClass rootXholonClass
```
      The root XholonClass.
    - xpath
```
IXPath xpath
```
      An instance of XPath.
- Class org.primordion.ef.Xholon2PlantUML_Composite extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
- Class org.primordion.ef.Xholon2SnapshotXml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
- Class org.primordion.ef.Xholon2SnapshotYaml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
- Class org.primordion.ef.Xholon2Svg extends Xholon2Svg implements Serializable
- Class org.primordion.ef.Xholon2Xml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
- Class org.primordion.ef.Xholon2XmlIh extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
- Class org.primordion.ef.Xholon2XmlXhn extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
- Class org.primordion.ef.Xholon2Yaml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldQuoteLabels
```
boolean shouldQuoteLabels
```
      Whether or not labels/names should be quoted.
    - xhAttrStyle
```
int xhAttrStyle
```
      How to transform Xholon/Java attributes.
    - xhAttrReturnAll
```
boolean xhAttrReturnAll
```
      Whether to return only the attributes of the immediate concrete class (false), or attributes from all concrete classes in the inheritance hierarchy that extend from Xholon or XholonWithPorts (true).
    - writeXholonId
```
boolean writeXholonId
```
      Should the Xholon ID be written out as an XML attribute for each node.
    - writeXholonRoleName
```
boolean writeXholonRoleName
```
      Should the Xholon roleName be written out as an XML attribute for each node.
    - writePorts
```
boolean writePorts
```
      Should ports be written out as XML attributes for each node that has ports.
    - writeAnnotations
```
boolean writeAnnotations
```
      Should annotations be written when available for nodes.
    - annService
```
IXholon annService
```
      Annotation service.
    - writeStandardAttributes
```
boolean writeStandardAttributes
```
      Should standard attributes be written out for each node.
    - writeAttributes
```
boolean writeAttributes
```
      Should attributes be written out for each node.
- Class org.primordion.ef.Xholon2Yuml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - showComments
```
boolean showComments
```
      I'm not sure if the pajek format can handle comments.
    - sortRoot
```
XholonSortedNode sortRoot
```
      Root of the binary tree that sorts and counts Xholon nodes.
    - rootXholonClass
```
IXholonClass rootXholonClass
```
      The root XholonClass.
    - xpath
```
IXPath xpath
```
      An instance of XPath.
    - shouldShowClassAssociations
```
boolean shouldShowClassAssociations
```
      Whether or not to show associations between classes.
    - shouldUseXholonClassAssociations
```
boolean shouldUseXholonClassAssociations
```
      Whether to get associations between classes, from the XholonClass (true), or from an instance of Xholon (false).
    - yumlBaseUrl
```
java.lang.String yumlBaseUrl
```
      Base URL for retrieving an embedded image.
    - shouldProcessAndShow
```
boolean shouldProcessAndShow
```
Package org.primordion.ef.bitmap
- Class org.primordion.ef.bitmap.Xholon2Jpeg4Canvas extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outFileNameExt
```
java.lang.String outFileNameExt
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - type
```
java.lang.String type
```
- Class org.primordion.ef.bitmap.Xholon2Png4Canvas extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outFileNameExt
```
java.lang.String outFileNameExt
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - type
```
java.lang.String type
```
Package org.primordion.ef.cytojs
- Class org.primordion.ef.cytojs.AbstractXholon2Cytojs extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - fileNameExtension
```
java.lang.String fileNameExtension
```
      Cytoscape data uses a JSON-like format. The data is embedded inside a JavaScript function.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - shouldUseBackgroundImage
```
boolean shouldUseBackgroundImage
```
    - viewElementId
```
java.lang.String viewElementId
```
      HTML element ID where Graphical Network View will be displayed.
    - height
```
int height
```
    - width
```
int width
```
    - layout
```
java.lang.String layout
```
      Cytoschape.js layout Many or all layouts have various parameters, but most have reasonable defaults. random preset grid breadthfirst circle arbor null cose default layout: "grid" ?
    - nodeSb
```
java.lang.StringBuilder nodeSb
```
      The accumulating text for all Cytoscape node elements.
    - edgeSb
```
java.lang.StringBuilder edgeSb
```
      The accumulating text for all Cytoscape edge elements.
- Class org.primordion.ef.cytojs.Xholon2CytojsNetwork extends AbstractXholon2Cytojs implements Serializable
- Class org.primordion.ef.cytojs.Xholon2CytojsTree extends AbstractXholon2Cytojs implements Serializable
Package org.primordion.ef.d3
- Class org.primordion.ef.d3.Xholon2Bubble extends Xholon2HierarchyJSON implements Serializable
- Class org.primordion.ef.d3.Xholon2Chord extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
- Class org.primordion.ef.d3.Xholon2CirclePack extends Xholon2HierarchyJSON implements Serializable
- Class org.primordion.ef.d3.Xholon2Cloud extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - wordsArr
```
JsArrayString wordsArr
```
      Use this to capture the words, instead of using StringBuilder sb
- Class org.primordion.ef.d3.Xholon2Cluster extends Xholon2HierarchyJSON implements Serializable
- Class org.primordion.ef.d3.Xholon2ForceDirected extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
- Class org.primordion.ef.d3.Xholon2HierarchyJSON extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - insertDummyData
```
boolean insertDummyData
```
      This should be false by default. DO NOT include this in efParams.
- Class org.primordion.ef.d3.Xholon2HierEdgeBundle extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - indent
```
java.lang.String indent
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
    - numNodes
```
int numNodes
```
- Class org.primordion.ef.d3.Xholon2Partition extends Xholon2HierarchyJSON implements Serializable
- Class org.primordion.ef.d3.Xholon2RadialTree extends Xholon2HierarchyJSON implements Serializable
- Class org.primordion.ef.d3.Xholon2Treemap extends Xholon2HierarchyJSON implements Serializable
Package org.primordion.ef.fsm
- Class org.primordion.ef.fsm.Xholon2Qep extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - qepFileName
```
java.lang.String qepFileName
```
    - outPath
```
java.lang.String outPath
```
    - sb
```
java.lang.StringBuilder sb
```
    - root
```
IXholon root
```
    - modelName
```
java.lang.String modelName
```
    - xpath
```
XPath xpath
```
    - owningXholon
```
IXholon owningXholon
```
    - owningXholonName
```
java.lang.String owningXholonName
```
    - owningXholonJavaClassName
```
java.lang.String owningXholonJavaClassName
```
    - topState
```
IXholon topState
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
- Class org.primordion.ef.fsm.Xholon2Scxml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - scxmlFileName
```
java.lang.String scxmlFileName
```
    - outPath
```
java.lang.String outPath
```
    - sb
```
java.lang.StringBuilder sb
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - xpath
```
XPath xpath
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
- Class org.primordion.ef.fsm.Xholon2Smc extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - smcFileName
```
java.lang.String smcFileName
```
    - outPath
```
java.lang.String outPath
```
    - sb
```
java.lang.StringBuilder sb
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - xpath
```
XPath xpath
```
    - owningXholon
```
IXholon owningXholon
```
    - owningXholonName
```
java.lang.String owningXholonName
```
    - topState
```
IXholon topState
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
Package org.primordion.ef.nosql
- Class org.primordion.ef.nosql.Xholon2Neo4jCypher extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - fileNameExtension
```
java.lang.String fileNameExtension
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - app
```
IApplication app
```
    - sbNode
```
java.lang.StringBuilder sbNode
```
    - sbRel
```
java.lang.StringBuilder sbRel
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - xholonClassSet
```
java.util.Set<E> xholonClassSet
```
      Set of XholonClass nodes that are used by Xholon instances in this model. The nodes are stored in a Set to avoid duplicates. They are sorted by the natural IXholonClass order, alphabetical by name. ???
    - mechanismSet
```
java.util.Set<E> mechanismSet
```
      Set of Mechanism nodes that are used by XholonClass instances in this model. The nodes are stored in a Set to avoid duplicates. They are sorted by the natural IMechanism order, alphabetical by name. ???
Package org.primordion.ef.other
- Class org.primordion.ef.other.Xholon2ChapNetwork extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - startSb
```
java.lang.StringBuilder startSb
```
      Start of the CHAP Network script.
    - nodeSb
```
java.lang.StringBuilder nodeSb
```
      The accumulating text for all CHAP Network nodes.
    - linkSb
```
java.lang.StringBuilder linkSb
```
      The accumulating text for all CHAP Network links.
    - optionsSb
```
java.lang.StringBuilder optionsSb
```
      CHAP Network options.
    - endSb
```
java.lang.StringBuilder endSb
```
      End of the CHAP Network script.
    - viewElementId
```
java.lang.String viewElementId
```
      HTML element ID where Graphical Network View will be displayed.
    - showNetwork
```
boolean showNetwork
```
      Whether or not to show port links between nodes.
    - showTree
```
boolean showTree
```
      Whether or not to show hierarchical parent-child relationships.
- Class org.primordion.ef.other.Xholon2ChapTree extends Xholon2ChapNetwork implements Serializable
- Class org.primordion.ef.other.Xholon2Extravis extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowLinks
```
boolean shouldShowLinks
```
      Whether or not to draw links between nodes.
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - xpath
```
XPath xpath
```
      An instance of the Xholon XPath class.
    - numHierarchyElements
```
int numHierarchyElements
```
      The number of elements in the hierarchy, excluding the root.
    - numDigits
```
int numDigits
```
      The number of digits in the maximum ID. examples: An id of 5 has 1 digit. An id of 42 has 2 digits. An id of 8309 has 4 digits.
- Class org.primordion.ef.other.Xholon2Gml extends Xholon2Xgmml implements Serializable
  - Serialized Fields
    - xslFileName
```
java.lang.String xslFileName
```
      Name of the XSL stylesheet that specifies the XGMML to GML transformation.
    - gmlOutPath
```
java.lang.String gmlOutPath
```
- Class org.primordion.ef.other.Xholon2GoogleTreeMap extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - shouldShowDeclarations
```
boolean shouldShowDeclarations
```
      Whether or not to include a <declarations element at the top.
    - maxChildren
```
int maxChildren
```
      Maximum number of children of any node in the subtree.
    - colorAlgorithm
```
int colorAlgorithm
```
      Algorithm to use in calculating a color value for a node.
    - sizeAlgorithm
```
int sizeAlgorithm
```
- Class org.primordion.ef.other.Xholon2JsTree extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
- Class org.primordion.ef.other.Xholon2ManyEyes extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - sortRoot
```
XholonSortedNode sortRoot
```
      Root of the binary tree that sorts and counts Xholon nodes.
- Class org.primordion.ef.other.Xholon2Newick extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldQuoteLabels
```
boolean shouldQuoteLabels
```
      Whether or not labels/names should be quoted.
    - shouldInsertNewlines
```
boolean shouldInsertNewlines
```
      Whether or not to format the output by inserting new lines.
- Class org.primordion.ef.other.Xholon2NewTab extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - dialog
```
DialogBox dialog
```
    - tabName
```
TextBox tabName
```
    - cancelButton
```
Button cancelButton
```
    - newButton
```
Button newButton
```
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - outFileExt
```
java.lang.String outFileExt
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
- Class org.primordion.ef.other.Xholon2Nwb extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowLinks
```
boolean shouldShowLinks
```
      Whether or not to draw links between nodes.
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldShowCommunityLevels
```
boolean shouldShowCommunityLevels
```
      Whether or not to generate node columns that show community level. If community level is shown, it allows the Circular Hierarchy algorithm to be used in NWB.
    - communityLevels
```
int communityLevels
```
      The actual number of community levels to use.
- Class org.primordion.ef.other.Xholon2Pajek extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowLinks
```
boolean shouldShowLinks
```
      Whether or not to draw links between nodes.
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - showComments
```
boolean showComments
```
      I'm not sure if the pajek format can handle comments.
- Class org.primordion.ef.other.Xholon2SExpression extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldPrettyPrint
```
boolean shouldPrettyPrint
```
      Whether or not to format the output by inserting extra spaces and new lines.
    - indent
```
java.lang.String indent
```
      Use for pretty-printing the output; 50 spaces.
- Class org.primordion.ef.other.Xholon2Smiles extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
- Class org.primordion.ef.other.Xholon2Spring extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - springFileName
```
java.lang.String springFileName
```
      The name of the file to output.
    - modelName
```
java.lang.String modelName
```
      The name of the Xholon model.
    - myRoot
```
IXholon myRoot
```
      A root node that should be written out.
    - mySubtrees
```
IXholon[] mySubtrees
```
      One or more subtrees that should be written out.
    - sb
```
java.lang.StringBuilder sb
```
      The instance of Writer that writes to springFileName or writes an XML string.
    - springPathName
```
java.lang.String springPathName
```
      The path where the guiFileName is located.
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
      The number of milliseconds since Jan 1, 1970. Same value as timeNow.
    - showStates
```
boolean showStates
```
      Whether or not to show state machines.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Get local part of XholonClass name, plus id.
    - xholonClassSet
```
java.util.Set<E> xholonClassSet
```
      Set of XholonClass nodes that are used by Xholon instances in this model. The nodes are stored in a Set to avoid duplicates. They are sorted by the natural IXholonClass order, alphabetical by name.
    - springObjectList
```
java.util.List<E> springObjectList
```
      List of nodes that should be written out separately as Spring framework parts. These are non-Xholons. They extend or implement some class or interface that's in the org.springframework Java package, either directly or indirectly in a hierarchy. They do not extend in any way from the Xholon class.
- Class org.primordion.ef.other.Xholon2TextTree extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - root
```
IXholon root
```
- Class org.primordion.ef.other.Xholon2TreeML extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - shouldShowDeclarations
```
boolean shouldShowDeclarations
```
      Whether or not to include a <declarations element at the top.
- Class org.primordion.ef.other.Xholon2Umple extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - sortRoot
```
XholonSortedNode sortRoot
```
      Root of the binary tree that sorts and counts Xholon nodes.
    - rootXholonClass
```
IXholonClass rootXholonClass
```
      The root XholonClass.
    - xpath
```
IXPath xpath
```
      An instance of XPath.
    - shouldShowClassAssociations
```
boolean shouldShowClassAssociations
```
      Whether or not to show associations between classes.
    - shouldUseXholonClassAssociations
```
boolean shouldUseXholonClassAssociations
```
      Whether to get associations between classes, from the XholonClass (true), or from an instance of Xholon (false).
- Class org.primordion.ef.other.Xholon2Xgmml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - targetTool
```
int targetTool
```
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - featureMetaNode
```
boolean featureMetaNode
```
      Cytoscape 2.x MetaNode plugin.
    - shouldShowLinks
```
boolean shouldShowLinks
```
      Whether or not to draw links between nodes.
    - shouldShowEdgeId
```
boolean shouldShowEdgeId
```
      Whether or not to include an id on edges.
    - shouldShowStateMachineEntities
```
boolean shouldShowStateMachineEntities
```
      Whether or not to show state machine nodes.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - nextEdgeId
```
int nextEdgeId
```
      The next edge id, used when writing an <edge> element.
    - showHierarchy
```
boolean showHierarchy
```
      Whether or not to write the hierarchical (tree) structure.
    - showHierarchyAsNestedGraphs
```
boolean showHierarchyAsNestedGraphs
```
      Whether or not to write the hierarchical (tree) structure as nested graphs (true) or as sets of parentNode/firstChild/nextSibling edges. This boolean is only valid if showHierarchy == true.
    - showXhc
```
boolean showXhc
```
      Whether or not to include an edge from IXholon to IXholonClass.
    - fileNameExtension
```
java.lang.String fileNameExtension
```
      XGMML files can be .xgmml or .xml
    - namespace
```
java.lang.String namespace
```
      XGMML official namespace
    - showSubtreeRoot
```
boolean showSubtreeRoot
```
      Whether or not to write the root node in the subtree.
    - shouldClose
```
boolean shouldClose
```
      Whether or not to close "out" once everything is written.
    - nodeSb
```
java.lang.StringBuilder nodeSb
```
      The accumulating text for all GraphML node elements.
    - edgeSb
```
java.lang.StringBuilder edgeSb
```
      The accumulating text for all GraphML edge elements.
    - shouldWriteToTarget
```
boolean shouldWriteToTarget
```
      Whether or not to actually write the output to some target such as a file or browser tab. This is useful for subclasses (such as Xholon2Gml) that only want their own (GML) format output.
    - shouldWriteVal
```
boolean shouldWriteVal
```
      Whether or not to write an attribute with the name "Val".
    - shouldWriteAllPorts
```
boolean shouldWriteAllPorts
```
      Whether or not to write an attribute with the name "AllPorts".
Package org.primordion.ef.petrinet
- Class org.primordion.ef.petrinet.Xholon2Graphviz4PetriNets extends Xholon2Graphviz implements Serializable
- Class org.primordion.ef.petrinet.Xholon2MindMap4PetriNets extends Xholon2MindMap implements Serializable
- Class org.primordion.ef.petrinet.Xholon2Pnml extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - placeX
```
int placeX
```
    - transitionX
```
int transitionX
```
    - nextY
```
int nextY
```
    - yInc
```
int yInc
```
    - usePnmlXmlns
```
boolean usePnmlXmlns
```
    - useNetTypeUrl
```
boolean useNetTypeUrl
```
    - usePage
```
boolean usePage
```
    - useToken
```
boolean useToken
```
    - useCapacity
```
boolean useCapacity
```
    - useOrientation
```
boolean useOrientation
```
    - useTimed
```
boolean useTimed
```
    - useTagged
```
boolean useTagged
```
    - useType
```
boolean useType
```
    - useRate
```
boolean useRate
```
    - valueStart
```
java.lang.String valueStart
```
    - valueEnd
```
java.lang.String valueEnd
```
    - useValueValue
```
boolean useValueValue
```
    - defaultStr
```
java.lang.String defaultStr
```
    - useDefaultStr
```
boolean useDefaultStr
```
    - allowSpacesInId
```
boolean allowSpacesInId
```
    - spaceChar
```
char spaceChar
```
    - pnmlXmlns
```
java.lang.String pnmlXmlns
```
    - useDimension
```
boolean useDimension
```
    - usePipeSettings
```
boolean usePipeSettings
```
    - useDocCheckSettings
```
boolean useDocCheckSettings
```
    - useVantedSettings
```
boolean useVantedSettings
```
- Class org.primordion.ef.petrinet.Xholon2PnmlDocCheck extends Xholon2Pnml implements Serializable
- Class org.primordion.ef.petrinet.Xholon2PnmlVanted extends Xholon2Pnml implements Serializable
- Class org.primordion.ef.petrinet.Xholon2Sbgn4PetriNets extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - arcSb
```
java.lang.StringBuilder arcSb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - placeX
```
double placeX
```
    - placeH
```
double placeH
```
    - placeW
```
double placeW
```
    - transitionX
```
double transitionX
```
    - transitionH
```
double transitionH
```
    - transitionW
```
double transitionW
```
    - processX
```
double processX
```
    - processH
```
double processH
```
    - processW
```
double processW
```
    - nextY
```
double nextY
```
    - yInc
```
double yInc
```
    - useSbgnXmlns
```
boolean useSbgnXmlns
```
    - placeCloneList
```
java.util.List<E> placeCloneList
```
- Class org.primordion.ef.petrinet.Xholon2Sbml4PetriNets extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - compartmentSb
```
java.lang.StringBuilder compartmentSb
```
    - placeSb
```
java.lang.StringBuilder placeSb
```
    - transitionSb
```
java.lang.StringBuilder transitionSb
```
    - functionDefSb
```
java.lang.StringBuilder functionDefSb
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
- Class org.primordion.ef.petrinet.Xholon2Vensim4PetriNets extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - sbControl
```
java.lang.StringBuilder sbControl
```
    - sbSketch
```
java.lang.StringBuilder sbSketch
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - reactions
```
java.util.List<E> reactions
```
      TODO Warning: this will currently only have a value if the PetriNet node is early enough in the Xholon tree.
Package org.primordion.ef.threejs
- Class org.primordion.ef.threejs.AbstractXholon2Threejs extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - sb
```
java.lang.StringBuilder sb
```
    - fileExt
```
java.lang.String fileExt
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - widthSegments
```
int widthSegments
```
    - heightSegments
```
int heightSegments
```
    - textColor
```
java.lang.String textColor
```
    - width
```
int width
```
    - height
```
int height
```
    - unit
```
java.lang.String unit
```
    - renderer
```
java.lang.String renderer
```
    - bgColor
```
int bgColor
```
    - bgOpacity
```
int bgOpacity
```
- Class org.primordion.ef.threejs.Xholon2Canvas extends AbstractXholon2Threejs implements Serializable
- Class org.primordion.ef.threejs.Xholon2WebGL extends AbstractXholon2Threejs implements Serializable
Package org.primordion.ef.xholon
- Class org.primordion.ef.xholon.DocRequester extends AbstractXholon2ExternalFormat implements Serializable
  - Serialized Fields
    - root
```
IXholon root
```
- Class org.primordion.ef.xholon.Xholon2Cd extends DocRequester implements Serializable
- Class org.primordion.ef.xholon.Xholon2Csh extends DocRequester implements Serializable
- Class org.primordion.ef.xholon.Xholon2Ih extends DocRequester implements Serializable
- Class org.primordion.ef.xholon.Xholon2Xhn extends DocRequester implements Serializable
Package org.primordion.memcomp.app
- Class org.primordion.memcomp.app.AppBraneCalc extends Application implements Serializable
- Class org.primordion.memcomp.app.AppMemComp extends Application implements Serializable
Package org.primordion.memcomp.app.BraneCalc1
- Class org.primordion.memcomp.app.BraneCalc1.AppBraneCalc1 extends AppBraneCalc implements Serializable
- Class org.primordion.memcomp.app.BraneCalc1.XhBraneCalc1 extends XhAbstractBraneCalc implements Serializable
Package org.primordion.memcomp.app.CoopPSys00ex0
- Class org.primordion.memcomp.app.CoopPSys00ex0.AppCoopPSys00ex0 extends AppMemComp implements Serializable
- Class org.primordion.memcomp.app.CoopPSys00ex0.XhCoopPSys00ex0 extends XhAbstractMemComp implements Serializable
Package org.primordion.memcomp.app.CoopSys02ex32_1
- Class org.primordion.memcomp.app.CoopSys02ex32_1.AppCoopSys02ex32_1 extends AppMemComp implements Serializable
- Class org.primordion.memcomp.app.CoopSys02ex32_1.XhCoopSys02ex32_1 extends XhAbstractMemComp implements Serializable
Package org.primordion.memcomp.app.CoopSys02ex343_1
- Class org.primordion.memcomp.app.CoopSys02ex343_1.AppCoopSys02ex343_1 extends AppMemComp implements Serializable
- Class org.primordion.memcomp.app.CoopSys02ex343_1.XhCoopSys02ex343_1 extends XhAbstractMemComp implements Serializable
Package org.primordion.memcomp.app.CoopSys02ex343_2
- Class org.primordion.memcomp.app.CoopSys02ex343_2.AppCoopSys02ex343_2 extends AppMemComp implements Serializable
- Class org.primordion.memcomp.app.CoopSys02ex343_2.XhCoopSys02ex343_2 extends XhAbstractMemComp implements Serializable
Package org.primordion.memcomp.app.Fsm06ex1
- Class org.primordion.memcomp.app.Fsm06ex1.AppFsm06ex1 extends AppMemComp implements Serializable
- Class org.primordion.memcomp.app.Fsm06ex1.XhFsm06ex1 extends XhAbstractMemComp implements Serializable
Package org.primordion.memcomp.app.Fsm06ex1_Fsm
- Class org.primordion.memcomp.app.Fsm06ex1_Fsm.AppFsm06ex1_Fsm extends Application implements Serializable
- Class org.primordion.memcomp.app.Fsm06ex1_Fsm.XhFsm06ex1_Fsm extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.memcomp.app.SymAnti02ex41
- Class org.primordion.memcomp.app.SymAnti02ex41.AppSymAnti02ex41 extends AppMemComp implements Serializable
- Class org.primordion.memcomp.app.SymAnti02ex41.XhSymAnti02ex41 extends XhAbstractMemComp implements Serializable
Package org.primordion.memcomp.base
- Class org.primordion.memcomp.base.XhAbstractBraneCalc extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.memcomp.base.XhAbstractMemComp extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - priority
```
int priority
```
Package org.primordion.user.app.azimuth.pn01
- Class org.primordion.user.app.azimuth.pn01.Apppn extends Application implements Serializable
- Class org.primordion.user.app.azimuth.pn01.Xhpn extends XholonWithPorts implements Serializable
  - Serialized Fields
    - val
```
int val
```
      A Petri Net state can theoretically have zero or more tokens. In this simple implementation, it only ever has zero or one tokens.
Package org.primordion.user.app.Bestiary
- Class org.primordion.user.app.Bestiary.AppBestiary extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
      how many time step intervals to chart
- Class org.primordion.user.app.Bestiary.Beast extends XholonWithPorts implements Serializable
  - Serialized Fields
    - color
```
int color
```
      Color designation, for use in GUIs. ex: "0xFF0000"
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.user.app.Bestiary.BeastBehavior extends XholonWithPorts implements Serializable
  - Serialized Fields
    - beast
```
IXholon beast
```
      The individual beast that has this behavior.
- Class org.primordion.user.app.Bestiary.BestiaryPattern extends Xholon implements Serializable
  - Serialized Fields
    - x
```
int x
```
      X coordinate of the origin of the pattern.
    - y
```
int y
```
      Y coordinate of the origin of the pattern.
    - origin
```
IXholon origin
```
      The gridCell at the upper left corner of the pattern.
    - patternText
```
java.lang.String patternText
```
      Pattern text read in from XML text.
    - action
```
java.lang.String action
```
      An action can be specified in the XML. ex: action="clear"
- Class org.primordion.user.app.Bestiary.Cat extends Beast implements Serializable
  - Serialized Fields
    - catSize
```
double catSize
```
- Class org.primordion.user.app.Bestiary.Door extends XholonWithPorts implements Serializable
  - Serialized Fields
    - doorStatus
```
int doorStatus
```
      Whether the door is currently opened or closed.
- Class org.primordion.user.app.Bestiary.FreedomOfMovementCatbehavior extends BeastBehavior implements Serializable
- Class org.primordion.user.app.Bestiary.GraphingBeastbehavior extends BeastBehavior implements Serializable
  - Serialized Fields
    - graphedNode
```
IXholon graphedNode
```
      The node whose value(s) will be graphed.
    - graphedNodeVal
```
double graphedNodeVal
```
      Cached value of the graphedNode value.
    - howChoose
```
int howChoose
```
      How to choose a volunteer beast: (1) use Licorice (2) use first beast in the Beasts Q
    - xInc
```
double xInc
```
      Amount of movement in the X direction each time step.
    - xMax
```
double xMax
```
      Maximum movement in the X direction.
    - yMult
```
double yMult
```
      The grid is typically 100*100 in size. The graph needs to be scaled to fit within this space. Multiply the graphedNode value by yMult to determine which gridCell to move to.
    - xCounter
```
double xCounter
```
      Current count of movement in the X direction.
    - remainderErr
```
double remainderErr
```
      (xCounter % 1.0) has a roundoff error
- Class org.primordion.user.app.Bestiary.GreetingHumanbehavior extends BeastBehavior implements Serializable
- Class org.primordion.user.app.Bestiary.GridPanelBestiary extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - licorice
```
IXholon licorice
```
- Class org.primordion.user.app.Bestiary.GrowingCatbehavior extends BeastBehavior implements Serializable
- Class org.primordion.user.app.Bestiary.HabitatCellBestiary extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.Bestiary.Human extends Beast implements Serializable
- Class org.primordion.user.app.Bestiary.IntegralBeast extends Beast implements Serializable
- Class org.primordion.user.app.Bestiary.LatLonPattern extends Xholon implements Serializable
  - Serialized Fields
    - x
```
int x
```
      X coordinate of the origin of the pattern.
    - y
```
int y
```
      Y coordinate of the origin of the pattern.
    - origin
```
IXholon origin
```
      The gridCell at the upper left corner of the pattern.
    - action
```
java.lang.String action
```
      An action can be specified in the XML. ex: action="clear"
    - nRows
```
int nRows
```
      Number of rows in the Xholon grid.
    - nCols
```
int nCols
```
      Number of columns (grid cells in a row) in the Xholon grid.
    - minlat
```
double minlat
```
      Minimum latitude in the GIS data.
    - minlon
```
double minlon
```
      Minimum longitude in the GIS data.
    - maxlat
```
double maxlat
```
      Maximum latitude in the GIS data.
    - maxlon
```
double maxlon
```
      Maximum longitude in the GIS data.
    - latFactor
```
double latFactor
```
      Factor for converting latitude to row.
    - lonFactor
```
double lonFactor
```
      Factor for converting longitude to column.
- Class org.primordion.user.app.Bestiary.MovingBeastBehavior extends BeastBehavior implements Serializable
  - Serialized Fields
    - moveSize
```
int moveSize
```
      The number of cells to move at one time.
    - moveSizeRandom
```
int moveSizeRandom
```
      The upper limit of a random number that will determine the actual +/- move size.
- Class org.primordion.user.app.Bestiary.MovingCatbehavior extends MovingBeastBehavior implements Serializable
- Class org.primordion.user.app.Bestiary.MovingHumanbehavior extends MovingBeastBehavior implements Serializable
- Class org.primordion.user.app.Bestiary.QueueBestiary extends Queue implements Serializable
- Class org.primordion.user.app.Bestiary.SleepingCatbehavior extends BeastBehavior implements Serializable
  - Serialized Fields
    - isSleeping
```
boolean isSleeping
```
      Whether or not the beast is sleeping.
- Class org.primordion.user.app.Bestiary.SoundOff extends Xholon implements Serializable
- Class org.primordion.user.app.Bestiary.SoundOn extends Xholon implements Serializable
- Class org.primordion.user.app.Bestiary.SoundToggle extends Xholon implements Serializable
- Class org.primordion.user.app.Bestiary.XhBestiary extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.bigraph.roomsghosts
- Class org.primordion.user.app.bigraph.roomsghosts.Approomsghosts extends Application implements Serializable
- Class org.primordion.user.app.bigraph.roomsghosts.Xhroomsghosts extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.climatechange.carboncycle03
- Class org.primordion.user.app.climatechange.carboncycle03.Appcarboncycle03 extends Application implements Serializable
- Class org.primordion.user.app.climatechange.carboncycle03.Death extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - terrestrialVegetation
```
IXholon terrestrialVegetation
```
    - soil
```
IXholon soil
```
- Class org.primordion.user.app.climatechange.carboncycle03.Decay extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - soil
```
IXholon soil
```
    - atmosphere
```
IXholon atmosphere
```
- Class org.primordion.user.app.climatechange.carboncycle03.DissolvedOrgCarbToOcean extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - dissolvedOrganicCarbon
```
IXholon dissolvedOrganicCarbon
```
    - deepOcean
```
IXholon deepOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.Downwelling extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - surfaceOcean
```
IXholon surfaceOcean
```
    - deepOcean
```
IXholon deepOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.Flows extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
    - terrestrialVegetation
```
IXholon terrestrialVegetation
```
    - soil
```
IXholon soil
```
    - surfaceOcean
```
IXholon surfaceOcean
```
    - deepOcean
```
IXholon deepOcean
```
    - surfaceSediment
```
IXholon surfaceSediment
```
    - marineOrganisms
```
IXholon marineOrganisms
```
    - dissolvedOrganicCarbon
```
IXholon dissolvedOrganicCarbon
```
    - coal
```
IXholon coal
```
    - oil
```
IXholon oil
```
    - naturalGas
```
IXholon naturalGas
```
    - carbonateRock
```
IXholon carbonateRock
```
    - kerogen
```
IXholon kerogen
```
- Class org.primordion.user.app.climatechange.carboncycle03.FossilCarbon extends Reservoir implements Serializable
- Class org.primordion.user.app.climatechange.carboncycle03.GasExchangeDown extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - atmosphere
```
IXholon atmosphere
```
    - surfaceOcean
```
IXholon surfaceOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.GasExchangeUp extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - atmosphere
```
IXholon atmosphere
```
    - surfaceOcean
```
IXholon surfaceOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.GlobalCarbonEmissions extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
    - fossilFuels
```
IXholon fossilFuels
```
    - in
```
MiscIoGwt in
```
- Class org.primordion.user.app.climatechange.carboncycle03.LandUseChange extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - soil
```
IXholon soil
```
    - atmosphere
```
IXholon atmosphere
```
    - in
```
MiscIoGwt in
```
    - token
```
java.lang.String[] token
```
    - dataStartYear
```
int dataStartYear
```
- Class org.primordion.user.app.climatechange.carboncycle03.MarineBiotaToDissolvedOrgCarb extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - marineOrganisms
```
IXholon marineOrganisms
```
    - dissolvedOrganicCarbon
```
IXholon dissolvedOrganicCarbon
```
- Class org.primordion.user.app.climatechange.carboncycle03.MarineDetritus extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - marineOrganisms
```
IXholon marineOrganisms
```
    - deepOcean
```
IXholon deepOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.MarinePhotosynthesis extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - surfaceOcean
```
IXholon surfaceOcean
```
    - marineOrganisms
```
IXholon marineOrganisms
```
- Class org.primordion.user.app.climatechange.carboncycle03.MarineRespiration extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - marineOrganisms
```
IXholon marineOrganisms
```
    - surfaceOcean
```
IXholon surfaceOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.Photosynthesis extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - atmosphere
```
IXholon atmosphere
```
    - terrestrialVegetation
```
IXholon terrestrialVegetation
```
- Class org.primordion.user.app.climatechange.carboncycle03.Reservoir extends Xhcarboncycle03 implements Serializable
- Class org.primordion.user.app.climatechange.carboncycle03.Respiration extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - terrestrialVegetation
```
IXholon terrestrialVegetation
```
    - atmosphere
```
IXholon atmosphere
```
- Class org.primordion.user.app.climatechange.carboncycle03.Sedimentation extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - deepOcean
```
IXholon deepOcean
```
    - surfaceSediment
```
IXholon surfaceSediment
```
- Class org.primordion.user.app.climatechange.carboncycle03.Upwelling extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - surfaceOcean
```
IXholon surfaceOcean
```
    - deepOcean
```
IXholon deepOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.VegToOcean extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - terrestrialVegetation
```
IXholon terrestrialVegetation
```
    - surfaceOcean
```
IXholon surfaceOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.Weathering extends Xhcarboncycle03 implements Serializable
  - Serialized Fields
    - rateFactor
```
double rateFactor
```
    - magicTerm
```
double magicTerm
```
      Extra Weathering value in IPCC diagram. Perhaps this carbon originates in deep sediment (rocks on hills/mountains/land)?
    - atmosphere
```
IXholon atmosphere
```
    - surfaceOcean
```
IXholon surfaceOcean
```
- Class org.primordion.user.app.climatechange.carboncycle03.Xhcarboncycle03 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.app.climatechange.igm
- Class org.primordion.user.app.climatechange.igm.Appigm extends Application implements Serializable
- Class org.primordion.user.app.climatechange.igm.DownLw extends Xhigm implements Serializable
  - Serialized Fields
    - emissivity
```
IXholon emissivity
```
    - atmosphericTemperature
```
IXholon atmosphericTemperature
```
- Class org.primordion.user.app.climatechange.igm.FromSurfaceLw extends Xhigm implements Serializable
  - Serialized Fields
    - surfaceTemperature
```
IXholon surfaceTemperature
```
- Class org.primordion.user.app.climatechange.igm.ReflectedSw extends Xhigm implements Serializable
  - Serialized Fields
    - solarInputSw
```
IXholon solarInputSw
```
    - albedo
```
IXholon albedo
```
- Class org.primordion.user.app.climatechange.igm.SolarInputSw extends Xhigm implements Serializable
  - Serialized Fields
    - solarConstantSw
```
IXholon solarConstantSw
```
- Class org.primordion.user.app.climatechange.igm.Temperature extends Xhigm implements Serializable
  - Serialized Fields
    - effectiveTemperature
```
IXholon effectiveTemperature
```
    - parentXhcName
```
java.lang.String parentXhcName
```
- Class org.primordion.user.app.climatechange.igm.ThruAtmosLw extends Xhigm implements Serializable
  - Serialized Fields
    - emissivity
```
IXholon emissivity
```
    - fromSurfaceLw
```
IXholon fromSurfaceLw
```
- Class org.primordion.user.app.climatechange.igm.UpLw extends Xhigm implements Serializable
  - Serialized Fields
    - emissivity
```
IXholon emissivity
```
    - atmosphericTemperature
```
IXholon atmosphericTemperature
```
- Class org.primordion.user.app.climatechange.igm.Viewable extends Xhigm implements Serializable
  - Serialized Fields
    - topOfAtmosphere
```
IXholon topOfAtmosphere
```
      Each instance of Viewable monitors a specific variable in some Model object
    - atmosphere
```
IXholon atmosphere
```
    - surface
```
IXholon surface
```
- Class org.primordion.user.app.climatechange.igm.Xhigm extends XholonWithPorts implements Serializable
  - Serialized Fields
    - STEFAN_BOLTZMANN_CONSTANT
```
double STEFAN_BOLTZMANN_CONSTANT
```
      Stefan-Boltzmann constant (J * K^-4 * m^-2 * s^-1) see: wikipedia Stefan–Boltzmann constant "the total energy radiated per unit surface area of a black body in unit time is proportional to the fourth power of the thermodynamic temperature"
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.app.climatechange.mdcs.m2_1mp
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Appmdcs extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Celsius extends Xhmdcs implements Serializable
  - Serialized Fields
    - k
```
IXholon k
```
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Flux extends Xhmdcs implements Serializable
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Space extends Xhmdcs implements Serializable
  - Serialized Fields
    - planet
```
IXholon planet
```
    - solarConstant
```
IXholon solarConstant
```
      Solar Constant.
    - longwaveRadiation
```
IXholon longwaveRadiation
```
      Infrared radiation from a planet.
    - reflectedShortwaveRadiation
```
IXholon reflectedShortwaveRadiation
```
      Reflected visible/UV from the surface of a planet.
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Sun extends Xhmdcs implements Serializable
  - Serialized Fields
    - solarConstant
```
double solarConstant
```
    - space
```
IXholon space
```
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Surface extends Xhmdcs implements Serializable
  - Serialized Fields
    - space
```
IXholon space
```
    - energy
```
IXholon energy
```
    - albedo
```
IXholon albedo
```
    - temperature
```
IXholon temperature
```
    - water
```
Water water
```
    - solarIn
```
IXholon solarIn
```
    - solar
```
double solar
```
    - infrared
```
double infrared
```
    - stefanBoltzmannConstant
```
IXholon stefanBoltzmannConstant
```
    - secondsPerTimeStep
```
IXholon secondsPerTimeStep
```
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Water extends Xhmdcs implements Serializable
  - Serialized Fields
    - density
```
IXholon density
```
    - specificHeat
```
IXholon specificHeat
```
    - depth
```
IXholon depth
```
    - heatCapacity
```
IXholon heatCapacity
```
- Class org.primordion.user.app.climatechange.mdcs.m2_1mp.Xhmdcs extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
    - units
```
java.lang.String units
```
Package org.primordion.user.app.climatechange.mdcs.m2_2mp
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Appmdcs extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Atmosphere extends Xhmdcs implements Serializable
  - Serialized Fields
    - topOfAtmosphere
```
IXholon topOfAtmosphere
```
    - surface
```
IXholon surface
```
    - energy
```
IXholon energy
```
    - temperature
```
IXholon temperature
```
    - albedo
```
IXholon albedo
```
    - mass
```
IXholon mass
```
    - specificHeat
```
IXholon specificHeat
```
    - heatCapacity
```
IXholon heatCapacity
```
    - absorption
```
IXholon absorption
```
    - emissivity
```
IXholon emissivity
```
    - swIn
```
IXholon swIn
```
    - lwIn
```
IXholon lwIn
```
      Infrared radiation from a planet.
    - lwUp
```
IXholon lwUp
```
    - lwDown
```
IXholon lwDown
```
    - irAtmosphere
```
double irAtmosphere
```
    - irToSpace
```
double irToSpace
```
    - ir
```
double ir
```
    - reflectedShortwaveRadiation
```
IXholon reflectedShortwaveRadiation
```
      Reflected visible/UV from the surface of a planet.
    - relectedFromAtmosphere
```
double relectedFromAtmosphere
```
    - absorbedByAtmosphere
```
double absorbedByAtmosphere
```
      Robinson: Solar_to_atmosphere
    - stefanBoltzmannConstant
```
IXholon stefanBoltzmannConstant
```
    - secondsPerTimeStep
```
IXholon secondsPerTimeStep
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Celsius extends Xhmdcs implements Serializable
  - Serialized Fields
    - k
```
IXholon k
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Flux extends Xhmdcs implements Serializable
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Fluxes extends Xhmdcs implements Serializable
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.RobinsonViewable extends Xhmdcs implements Serializable
  - Serialized Fields
    - xpathExpr
```
java.lang.String xpathExpr
```
    - node
```
IXholon node
```
    - secondsPerTimeStep
```
double secondsPerTimeStep
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.RobinsonViewables extends Xhmdcs implements Serializable
  - Serialized Fields
    - xpathExpr
```
java.lang.String xpathExpr
```
    - secondsPerTimeStep
```
IXholon secondsPerTimeStep
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.SolarVariationAO extends Xhmdcs implements Serializable
  - Serialized Fields
    - star
```
IXholon star
```
      The star (ex: Sun) where the variation is located.
    - solarConstantMultiplier
```
double solarConstantMultiplier
```
      1.4% increase in solarConstant causes 1 degree increase in Earth temperature
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Space extends Xhmdcs implements Serializable
  - Serialized Fields
    - planet
```
IXholon planet
```
    - solarConstant
```
IXholon solarConstant
```
      Solar Constant flux.
    - longwaveRadiation
```
IXholon longwaveRadiation
```
      Infrared radiation from a planet.
    - reflectedShortwaveRadiation
```
IXholon reflectedShortwaveRadiation
```
      Reflected visible/UV from the surface of a planet.
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Sun extends Xhmdcs implements Serializable
  - Serialized Fields
    - solarConstant
```
double solarConstant
```
    - space
```
IXholon space
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.SunspotCycleAO extends Xhmdcs implements Serializable
  - Serialized Fields
    - star
```
IXholon star
```
      The star (ex: Sun) where the sunspots are located.
    - baseSolarConstant
```
double baseSolarConstant
```
    - minSunspots
```
double minSunspots
```
    - multiplier
```
double multiplier
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Surface extends Xhmdcs implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
    - energy
```
IXholon energy
```
    - albedo
```
IXholon albedo
```
    - temperature
```
IXholon temperature
```
    - water
```
Water water
```
    - solarIn
```
IXholon solarIn
```
    - solar
```
double solar
```
    - infrared
```
double infrared
```
    - infraredIn
```
IXholon infraredIn
```
    - stefanBoltzmannConstant
```
IXholon stefanBoltzmannConstant
```
    - secondsPerTimeStep
```
IXholon secondsPerTimeStep
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.TopOfAtmosphere extends Xhmdcs implements Serializable
  - Serialized Fields
    - space
```
IXholon space
```
    - atmosphere
```
IXholon atmosphere
```
    - albedo
```
IXholon albedo
```
      Albedo as used in the Robinson STELLA model. If it has a value of 0.0, then it will have no effect.
    - solarConstant
```
IXholon solarConstant
```
      Solar Constant flux.
    - solarConstantDivFour
```
IXholon solarConstantDivFour
```
      Solar Constant divided by 4. Local to Tpf.
    - reflectedShortwaveRadiation
```
IXholon reflectedShortwaveRadiation
```
      Reflected visible/UV from the surface and/or atmosphere of a planet.
    - lwOut
```
IXholon lwOut
```
      Longwave radiation from atmosphere, out to space.
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Water extends Xhmdcs implements Serializable
  - Serialized Fields
    - density
```
IXholon density
```
    - specificHeat
```
IXholon specificHeat
```
    - depth
```
IXholon depth
```
    - heatCapacity
```
IXholon heatCapacity
```
- Class org.primordion.user.app.climatechange.mdcs.m2_2mp.Xhmdcs extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
    - units
```
java.lang.String units
```
Package org.primordion.user.app.climatechange.model04
- Class org.primordion.user.app.climatechange.model04.Appmodel04 extends Application implements Serializable
- Class org.primordion.user.app.climatechange.model04.Atmosphere extends Xhmodel04 implements Serializable
  - Serialized Fields
    - shortwaveAbsorptionFactor
```
double shortwaveAbsorptionFactor
```
      Shortwave absorption factor. See my notes from August 21, 2011 on a separate sheet of paper, where I conclude that absorbedByAtmosphere is best calculated as a percentage of incomingSolarRadiation. See K&T 1997 p. 204. See Trenberth 2009 p. 317. See Kim and Ramanathan 2008 abstract. Contributors to this quantity (67), in order of importance, are: H2O (38), O3 (15), overlapping effects (12), O2 (2), CO2 (0) (K&T 1997 p. 204). There's a large uncertainty in this value, from 19% to 23% (or more).
    - topOfAtmosphere
```
IXholon topOfAtmosphere
```
    - surface
```
IXholon surface
```
    - incomingSolarRadiation
```
double incomingSolarRadiation
```
      Earth's incoming solar radiation per unit area (W * m^-2). Earth's global average solar flux.
    - reflectedSolarRadiation
```
double reflectedSolarRadiation
```
      Reflected solar radiation from clouds, aerosols, atmospheric gases.
    - netShortwaveFlux
```
double netShortwaveFlux
```
      Net shortwave flux that will be absorbed or reflected by the Surface.
    - absorbedByAtmosphere
```
double absorbedByAtmosphere
```
      Incoming solar radiation absorbed by atmosphere as heat.
    - sensibleHeatFlux
```
double sensibleHeatFlux
```
      Sensible heat flux SH (incoming from surface).
    - latentHeatFlux
```
double latentHeatFlux
```
      Latent heat flux LH (incoming from surface).
    - surfaceRadiation
```
double surfaceRadiation
```
      Surface radiation (incoming from surface).
    - atmosphericWindow
```
double atmosphericWindow
```
      Atmospheric Window from surface to top of atmosphere.
    - emittedByAtmosphere
```
double emittedByAtmosphere
```
      Emitted by atmosphere.
    - emittedByClouds
```
double emittedByClouds
```
      Emitted by clouds.
    - backRadiationBase
```
double backRadiationBase
```
      Back radiation from natural base levels (year 1750) of greenhouse gases. This value should be held constant during the lifetime of the simulation, although it could be changed during initialization. I assume this is just the K&T value (324) minus the IPCC GHG radiative forcing (2.43).
    - backRadiation
```
double backRadiation
```
      Back radiation from greenhouse gases. This is equal to a constant base quantity plus a variable man-made increment.
    - outgoingLongwave
```
double outgoingLongwave
```
      Outgoing longwave radiation.
    - heat
```
double heat
```
      Total accumulated longwave infrared heat energy absorbed by the atmosphere, from all sources.
    - albedo
```
double albedo
```
      Albedo of the atmosphere. Based on planetary albedo of 0.31
    - emittedByAtmospherePro
```
double emittedByAtmospherePro
```
      outgoing proportions (upwards from the atmosphere)
    - emittedByCloudsPro
```
double emittedByCloudsPro
```
- Class org.primordion.user.app.climatechange.model04.AtmosphericAlbedoAO extends Xhmodel04 implements Serializable
  - Serialized Fields
    - planet
```
IXholon planet
```
- Class org.primordion.user.app.climatechange.model04.AveragerAO extends Xhmodel04 implements Serializable
  - Serialized Fields
    - planet
```
IXholon planet
```
- Class org.primordion.user.app.climatechange.model04.CarbonDioxide extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
      The atmosphere that this GHG is part of.
    - ghgLevelObj
```
IXholon ghgLevelObj
```
      An optional passive object that knows the current level of this GHG.
    - ghgLevel
```
double ghgLevel
```
      Current level of this GHG in the atmosphere. In billions of tonnes of carbon (GtC).
- Class org.primordion.user.app.climatechange.model04.Cfc11 extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
      The atmosphere that this GHG is part of.
    - ghgLevelObj
```
IXholon ghgLevelObj
```
      An optional passive object that knows the current level of this GHG.
    - ghgLevel
```
double ghgLevel
```
      Current level of this GHG in the atmosphere. In billions of tonnes of carbon (GtC).
- Class org.primordion.user.app.climatechange.model04.Cfc12 extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
      The atmosphere that this GHG is part of.
    - ghgLevelObj
```
IXholon ghgLevelObj
```
      An optional passive object that knows the current level of this GHG.
    - ghgLevel
```
double ghgLevel
```
      Current level of this GHG in the atmosphere. In billions of tonnes of carbon (GtC).
- Class org.primordion.user.app.climatechange.model04.Earth extends Xhmodel04 implements Serializable
  - Serialized Fields
    - albedo
```
double albedo
```
      Earth's average albedo.
    - albedoMultiplier
```
double albedoMultiplier
```
      3.3% increase in albedo causes 1 degree decrease in Earth temperature.
    - emissivity
```
double emissivity
```
      Earth's effective emissivity.
    - emissivityMultiplier
```
double emissivityMultiplier
```
      1.4% increase in emissivity causes 1 degree decrease in Earth temperature.
    - temperature
```
double temperature
```
      Earth's current temperature in degrees Kelvin (this should be a calculated value).
    - radius
```
double radius
```
      Earth's radius (meters).
- Class org.primordion.user.app.climatechange.model04.Methane extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
      The atmosphere that this GHG is part of.
    - ghgLevelObj
```
IXholon ghgLevelObj
```
      An optional passive object that knows the current level of this GHG.
    - ghgLevel
```
double ghgLevel
```
      Current level of this GHG in the atmosphere. In billions of tonnes of carbon (GtC).
- Class org.primordion.user.app.climatechange.model04.NitrousOxide extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
      The atmosphere that this GHG is part of.
    - ghgLevelObj
```
IXholon ghgLevelObj
```
      An optional passive object that knows the current level of this GHG.
    - ghgLevel
```
double ghgLevel
```
      Current level of this GHG in the atmosphere. In billions of tonnes of carbon (GtC).
- Class org.primordion.user.app.climatechange.model04.OtherGhg extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
      The atmosphere that this GHG is part of.
    - ghgLevelObj
```
IXholon ghgLevelObj
```
      An optional passive object that knows the current level of this GHG.
    - ghgLevel
```
double ghgLevel
```
      Current level of this GHG in the atmosphere. In billions of tonnes of carbon (GtC).
- Class org.primordion.user.app.climatechange.model04.SolarVariationAO extends Xhmodel04 implements Serializable
  - Serialized Fields
    - star
```
IXholon star
```
      The star (ex: Sun) where the variation is located.
    - solarConstantMultiplier
```
double solarConstantMultiplier
```
      1.4% increase in solarConstant causes 1 degree increase in Earth temperature
- Class org.primordion.user.app.climatechange.model04.Space extends Xhmodel04 implements Serializable
  - Serialized Fields
    - planet
```
IXholon planet
```
    - shortwaveRadiation
```
double shortwaveRadiation
```
      visible/UV radiation from a star; children may change this value
    - longwaveRadiation
```
double longwaveRadiation
```
      infrared rediation from a planet
- Class org.primordion.user.app.climatechange.model04.Sun extends Xhmodel04 implements Serializable
  - Serialized Fields
    - solarConstant
```
double solarConstant
```
      solar constant Solar radiation per unit area (W * m^-2), at Earth distance (1 AU) "Earth receives 174 petawatts (PW) of incoming solar radiation (insolation) at the upper atmosphere" per year (wikipedia Solar_energy). Earth mean radius is 6,371.0 km (wikipedia Earth) = 6371000 meters. Area of a circle is PI * r^2 . A petawatt (PW) is 10^15 . 6371000^2 * PI * 1367 = 1.743^17 = 174.3^15 .
    - space
```
IXholon space
```
      port
- Class org.primordion.user.app.climatechange.model04.SunspotCycleAO extends Xhmodel04 implements Serializable
  - Serialized Fields
    - star
```
IXholon star
```
      The star (ex: Sun) where the sunspots are located.
    - baseSolarConstant
```
double baseSolarConstant
```
    - minSunspots
```
double minSunspots
```
    - multiplier
```
double multiplier
```
- Class org.primordion.user.app.climatechange.model04.Surface extends Xhmodel04 implements Serializable
  - Serialized Fields
    - atmosphere
```
IXholon atmosphere
```
    - netShortwaveFlux
```
double netShortwaveFlux
```
      Net shortwave flux that will be absorbed or reflected by the Surface SW.
    - reflectedSolarRadiation
```
double reflectedSolarRadiation
```
      Reflected solar radiation from surface.
    - absorbedBySurfaceSw
```
double absorbedBySurfaceSw
```
      Shortwave radiation absorbed by surface.
    - absorbedBySurfaceLw
```
double absorbedBySurfaceLw
```
      Longwave radiation absorbed by surface.
    - sensibleHeatFlux
```
double sensibleHeatFlux
```
      Sensible heat flux SH. "SW - netLW - LH - SH = 0" (K&T, p.205) so SH = SW - netLW - LH SH = 168 - (390 - 324) - 78
    - latentHeatFlux
```
double latentHeatFlux
```
      Latent heat flux LH. "equal to the global mean rate of precipitation" (K&T, p.204)
    - surfaceRadiation
```
double surfaceRadiation
```
      Surface radiation. "corresponds to a blackbody emission at 15C" (K&T, p.205) mean Earth temperature estimates online: 14C 14.6C average surface temperature of the Earth: 15C 288K (Neelin, p.198) can use Stefan-Boltzmann constant; my calculator: (390/.0000000567)pow0.25 --> 287.98K (14.83C)
    - heat
```
double heat
```
      Total accumulated longwave infrared heat energy absorbed by the surface, from all sources. TODO initial value should correspond to the Earth's average annual temperature.
    - albedo
```
double albedo
```
      Albedo of the surface. Based on planetary albedo of 0.31
    - latentHeatFluxPro
```
double latentHeatFluxPro
```
      outgoing proportions (from the surface) "SW - netLW - LH - SH = 0" (K&T, p.205)
    - surfaceRadiationPro
```
double surfaceRadiationPro
```
- Class org.primordion.user.app.climatechange.model04.SurfaceAlbedoAO extends Xhmodel04 implements Serializable
  - Serialized Fields
    - planet
```
IXholon planet
```
- Class org.primordion.user.app.climatechange.model04.TopOfAtmosphere extends Xhmodel04 implements Serializable
  - Serialized Fields
    - space
```
IXholon space
```
    - atmosphere
```
IXholon atmosphere
```
    - solarConstant
```
double solarConstant
```
      Solar constant per unit area (W * m^-2) (this is an external forcing)
    - incomingSolarRadiation
```
double incomingSolarRadiation
```
      Earth's incoming solar radiation per unit area (W * m^-2). Earth's global average solar flux.
- Class org.primordion.user.app.climatechange.model04.Viewable extends Xhmodel04 implements Serializable
  - Serialized Fields
    - topOfAtmosphere
```
IXholon topOfAtmosphere
```
      Each instance of Viewable monitors a specific variable in some Model object
    - atmosphere
```
IXholon atmosphere
```
    - surface
```
IXholon surface
```
- Class org.primordion.user.app.climatechange.model04.Xhmodel04 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - STEFAN_BOLTZMANN_CONSTANT
```
double STEFAN_BOLTZMANN_CONSTANT
```
      Stefan-Boltzmann constant (J * K^-4 * m^-2 * s^-1) see: wikipedia Stefan–Boltzmann constant "the total energy radiated per unit surface area of a black body in unit time is proportional to the fourth power of the thermodynamic temperature"
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.app.climatechange.solarsystemtest
- Class org.primordion.user.app.climatechange.solarsystemtest.Appsolarsystemtest extends Application implements Serializable
- Class org.primordion.user.app.climatechange.solarsystemtest.Xhsolarsystemtest extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.app.Collisions
- Class org.primordion.user.app.Collisions.AppCollisions extends Application implements Serializable
- Class org.primordion.user.app.Collisions.XhCollisions extends XholonWithPorts implements Serializable
  - Serialized Fields
    - val
```
int val
```
    - rate
```
float rate
```
    - proportionLicensed
```
float proportionLicensed
```
    - avgVehicleKilometers
```
int avgVehicleKilometers
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.English2French
- Class org.primordion.user.app.English2French.AppEnglish2French extends Application implements Serializable
- Class org.primordion.user.app.English2French.ClosedBracket extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.Drill extends XhEnglish2French implements Serializable
  - Serialized Fields
    - lexicon
```
Lexicon lexicon
```
      The English lexicon.
- Class org.primordion.user.app.English2French.FlagPass extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.IndexItem extends Xholon implements Serializable
  - Serialized Fields
    - firstLetter
```
char firstLetter
```
      The first letter.
    - item
```
IXholon item
```
      The first item (lexeme/transform) in the lexicon or transform list whose lemma string begins with firstLetter.
- Class org.primordion.user.app.English2French.Lexeme extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.Lexicon extends XhEnglish2French implements Serializable
  - Serialized Fields
    - index
```
XholonList index
```
      An index of the contents of this lexicon.
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.user.app.English2French.TokenPass extends XhEnglish2French implements Serializable
  - Serialized Fields
    - questionVerb
```
java.lang.String[] questionVerb
```
      question verbs
    - normalized
```
boolean normalized
```
      Has the sentence been normalized yet?
- Class org.primordion.user.app.English2French.Transform extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.Transforms extends XhEnglish2French implements Serializable
  - Serialized Fields
    - index
```
XholonList index
```
      An index of the contents of this lexicon.
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.user.app.English2French.WordPass extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.WordRule extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.XhEnglish2French extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - valString
```
java.lang.String valString
```
    - valInt
```
int valInt
```
Package org.primordion.user.app.English2French.rule
- Class org.primordion.user.app.English2French.rule.Rule_A_FPL extends Rule_Flag implements Serializable
  - Serialized Fields
    - endings
```
java.lang.String[][] endings
```
      possible endings
- Class org.primordion.user.app.English2French.rule.Rule_B_CET_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_B_LEL_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_B_POS_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_B_UNE_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_CEL_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_FEM_A extends Rule_Flag implements Serializable
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - askMaleFemale
```
boolean askMaleFemale
```
      Whether or not to ask user if the referenced person is male or female.
- Class org.primordion.user.app.English2French.rule.Rule_C_FEM_E extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_FPL extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_JEV_H extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_PLU extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_POS_B extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_POS_E extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_C_REF_X extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_D_ALE_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_D_DED_E extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_D_DLE_S extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_Flag extends XhEnglish2French implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_G_CEL_B extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_G_CIL extends Rule_Flag implements Serializable
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - emphasizeThisThat
```
boolean emphasizeThisThat
```
      Whether or not to emphasize the difference between this and that in French. Whether to add "-ci" or "-l�".
- Class org.primordion.user.app.English2French.rule.Rule_G_PLU_S extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_G_QUE_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_G_SUP_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_H_series extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_I_series extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_J_AND_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_N_JAM_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_N_PAS_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_N_RIN_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_Q_QUI_Q extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_Q_QUI_R extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_T_AFT_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_T_PRO_N extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_V_AVO_R extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_V_IMP_A extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_V_QUE extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_X_QQQ_Q extends Rule_Flag implements Serializable
- Class org.primordion.user.app.English2French.rule.Rule_X_XXX_X extends Rule_Flag implements Serializable
  - Serialized Fields
    - verbEndings_present
```
java.lang.String[][] verbEndings_present
```
      French verb endings, present tense
    - verbEndings_imperfect
```
java.lang.String[][] verbEndings_imperfect
```
      French verb endings, imperfect tense
Package org.primordion.user.app.GameOfLife
- Class org.primordion.user.app.GameOfLife.AppGameOfLife extends Application implements Serializable
- Class org.primordion.user.app.GameOfLife.GameOfLifePattern extends Xholon implements Serializable
  - Serialized Fields
    - x
```
int x
```
      X coordinate of the origin of the pattern.
    - y
```
int y
```
      Y coordinate of the origin of the pattern.
    - origin
```
IXholon origin
```
      The gridCell at the upper left corner of the pattern.
    - patternText
```
java.lang.String patternText
```
      Pattern text read in from XML text.
    - action
```
java.lang.String action
```
      An action can be specified in the XML. ex: action="clear"
- Class org.primordion.user.app.GameOfLife.GridPanelGameOfLife extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.GameOfLife.XhGameOfLife extends AbstractGrid implements Serializable
  - Serialized Fields
    - numNeighborsAlive
```
int numNeighborsAlive
```
    - alive
```
boolean alive
```
Package org.primordion.user.app.Generic
- Class org.primordion.user.app.Generic.AppGeneric extends Application implements Serializable
- Class org.primordion.user.app.Generic.XhGeneric extends XholonWithPorts implements Serializable
Package org.primordion.user.app.HelloWorld_TestTime
- Class org.primordion.user.app.HelloWorld_TestTime.AppHelloWorld_TestTime extends Application implements Serializable
- Class org.primordion.user.app.HelloWorld_TestTime.XhHelloWorld_TestTime extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - xhTimerTask
```
XholonTimerTask xhTimerTask
```
    - mySvgId
```
java.lang.String mySvgId
```
    - inc
```
int inc
```
Package org.primordion.user.app.helloworldjnlp
- Class org.primordion.user.app.helloworldjnlp.AppHelloWorld extends Application implements Serializable
- Class org.primordion.user.app.helloworldjnlp.XhHelloWorld extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.Hex
- Class org.primordion.user.app.Hex.AppHex extends Application implements Serializable
- Class org.primordion.user.app.Hex.GridPanelHex extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.Hex.Monster extends XhHex implements Serializable
- Class org.primordion.user.app.Hex.XhHex extends AbstractGrid implements Serializable
  - Serialized Fields
    - alive
```
boolean alive
```
    - roleName
```
java.lang.String roleName
```
    - hasMoved
```
boolean hasMoved
```
Package org.primordion.user.app.mathmltest1
- Class org.primordion.user.app.mathmltest1.AppMathmlTest1 extends Application implements Serializable
- Class org.primordion.user.app.mathmltest1.TestCi extends XhTest1 implements Serializable
  - Serialized Fields
    - x
```
double x
```
    - y
```
double y
```
- Class org.primordion.user.app.mathmltest1.XhTest1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.MeTTTa
- Class org.primordion.user.app.MeTTTa.AppMeTTTa extends Application implements Serializable
- Class org.primordion.user.app.MeTTTa.MeTTTaBusinessDelegateLocal extends XhMeTTTa implements Serializable
  - Serialized Fields
    - meTTTaPojo
```
MeTTTaPojo meTTTaPojo
```
      A POJO that contains the basic move logic.
- Class org.primordion.user.app.MeTTTa.MeTTTaController extends XhMeTTTa implements Serializable
  - Serialized Fields
    - model
```
MeTTTaModel model
```
    - worker
```
IXholon worker
```
- Class org.primordion.user.app.MeTTTa.MeTTTaModel extends XhMeTTTa implements Serializable
  - Serialized Fields
    - view
```
IXholon view
```
    - grid
```
int[] grid
```
      The current player for each position in the 3 x 3 grid.
    - numPositionsPlayed
```
int numPositionsPlayed
```
      The number of positions that have been played so far in this game.
    - gameState
```
int gameState
```
      Current state of the game. Who's turn is it?
- Class org.primordion.user.app.MeTTTa.MeTTTaView extends XhMeTTTa implements Serializable
  - Serialized Fields
    - button
```
Button[] button
```
      Buttons that are used to select a position, and to display human and computer selections.
    - select0
```
Button select0
```
    - select1
```
Button select1
```
    - select2
```
Button select2
```
    - select3
```
Button select3
```
    - select4
```
Button select4
```
    - select5
```
Button select5
```
    - select6
```
Button select6
```
    - select7
```
Button select7
```
    - select8
```
Button select8
```
    - computerfirst
```
Button computerfirst
```
    - newgame
```
Button newgame
```
- Class org.primordion.user.app.MeTTTa.MeTTTaWorker extends XhMeTTTa implements Serializable
  - Serialized Fields
    - businessDelegate
```
IXholon businessDelegate
```
- Class org.primordion.user.app.MeTTTa.XhMeTTTa extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.OrNode
- Class org.primordion.user.app.OrNode.AppOrNodeSample extends Application implements Serializable
- Class org.primordion.user.app.OrNode.XhOrNodeSample extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.petrinet.feinberg1
- Class org.primordion.user.app.petrinet.feinberg1.Appfeinberg1 extends Application implements Serializable
- Class org.primordion.user.app.petrinet.feinberg1.Xhfeinberg1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.PingPong
- Class org.primordion.user.app.PingPong.AppPingPong extends Application implements Serializable
- Class org.primordion.user.app.PingPong.XhPingPong extends XholonWithPorts implements Serializable
  - Serialized Fields
    - sum
```
long sum
```
Package org.primordion.user.app.RavaszHnm
- Class org.primordion.user.app.RavaszHnm.AppRavaszHnm extends Application implements Serializable
- Class org.primordion.user.app.RavaszHnm.XhRavaszHnm extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
      The number of siblings that a PeripheralNode has. ex: 1.0 2.0 3.0 4.0 5.0 ...
Package org.primordion.user.app.rcs.Rcs1
- Class org.primordion.user.app.rcs.Rcs1.AppRcs1 extends Application implements Serializable
- Class org.primordion.user.app.rcs.Rcs1.XhRcs1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.app.rcs.Rcs2
- Class org.primordion.user.app.rcs.Rcs2.AppRcs2 extends Application implements Serializable
- Class org.primordion.user.app.rcs.Rcs2.XhRcs2 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.Red
- Class org.primordion.user.app.Red.AppRed extends Application implements Serializable
- Class org.primordion.user.app.Red.GridPanelRed extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.Red.XhRed extends AbstractGrid implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
    - rgb
```
RGBTypeInt rgb
```
Package org.primordion.user.app.Risk
- Class org.primordion.user.app.Risk.AppRisk extends Application implements Serializable
- Class org.primordion.user.app.Risk.Card extends XhRisk implements Serializable
  - Serialized Fields
    - territory
```
IXholon territory
```
      Each territory card refers to a different Territory node.
    - figure
```
IXholon figure
```
      Each territory card refers to one of several Figure nodes.
- Class org.primordion.user.app.Risk.Cards extends XhRisk implements Serializable
  - Serialized Fields
    - extraArmies
```
int extraArmies
```
      The number of extra armies that a player receives by turning in a set of cards. This number is increased each time a set of cards is turned in.
    - selectionPileSize
```
int selectionPileSize
```
      A card can be currently owned by a player, or it can be in one of two piles:
      
      selection pile
      
      discard pile
      
      Both of these piles are stored as children of the Cards node. All of the cards in the selection pile come before the cards in the discard pile. The selectionPileSize variable is used to separate the two piles. If selectionPileSize == the total number of cards, then all cards are in the selection pile. If selectionPileSize == 0, then all cards are in the discard pile. The cards must be shuffled when selectionPileSize == 0.
- Class org.primordion.user.app.Risk.ComputerPlayer extends Player implements Serializable
- Class org.primordion.user.app.Risk.Continent extends XhRisk implements Serializable
  - Serialized Fields
    - bonusArmies
```
int bonusArmies
```
      The number of bonus armies that a player receives for occupying all territories in a continent.
- Class org.primordion.user.app.Risk.Dice extends XhRisk implements Serializable
- Class org.primordion.user.app.Risk.Die extends XhRisk implements Serializable
  - Serialized Fields
    - val
```
int val
```
      The current value of the die. After being rolled, a die has a value of 1 2 3 4 5 or 6. When not in use, a die has a value of 0.
- Class org.primordion.user.app.Risk.GameController extends XhRisk implements Serializable
  - Serialized Fields
    - model
```
GameModel model
```
    - view
```
GameView view
```
    - controllerState
```
int controllerState
```
      Current state of the controller.
- Class org.primordion.user.app.Risk.GameModel extends XhRisk implements Serializable
  - Serialized Fields
    - players
```
Players players
```
      The <Players> container node in the Xholon tree.
    - dice
```
Dice dice
```
      The <Dice> container node in the Xholon tree.
    - cards
```
Cards cards
```
      The <Cards> container node in the Xholon tree.
    - quantities
```
IXholon quantities
```
      The <Quantities> container node in the Xholon tree.
    - quantityAll
```
Quantity quantityAll
```
      The <All> quantity node in the Xholon tree.
    - world
```
IXholon world
```
      The <World> container node in the Xholon tree.
- Class org.primordion.user.app.Risk.GameView extends SvgClient implements Serializable
  - Serialized Fields
    - model
```
GameModel model
```
    - xpath
```
IXPath xpath
```
- Class org.primordion.user.app.Risk.HumanPlayer extends Player implements Serializable
- Class org.primordion.user.app.Risk.Player extends XhRisk implements Serializable
  - Serialized Fields
    - controller
```
IXholon controller
```
      The MVC controller processes events that are generated by a Player.
    - unplacedArmies
```
int unplacedArmies
```
      Armies acquired during a turn that have not yet been placed on territories.
    - conqueror
```
boolean conqueror
```
      Whether or not this player has conquered at least one territory in the current turn.
    - color
```
java.lang.String color
```
      The color that identifies this player and his/her/its territories.
    - actionStateMachine
```
StateMachine actionStateMachine
```
      The state machine that governs the actions that a player may take at any time.
    - actions
```
java.lang.String[] actions
```
      action list
    - actionsEnabled
```
boolean[] actionsEnabled
```
      At any given time, some actions are enabled (true) and others are disabled (false).
- Class org.primordion.user.app.Risk.Players extends XhRisk implements Serializable
  - Serialized Fields
    - world
```
IXholon world
```
- Class org.primordion.user.app.Risk.Quantity extends XhRisk implements Serializable
  - Serialized Fields
    - val
```
int val
```
      A quantity encapulates an integer value.
- Class org.primordion.user.app.Risk.RiskTestHelperScript extends XholonScript implements Serializable
  - Serialized Fields
    - action
```
int action
```
    - numArmies
```
int numArmies
```
    - numCards
```
int numCards
```
- Class org.primordion.user.app.Risk.Territory extends XhRisk implements Serializable
  - Serialized Fields
    - quantityArmies
```
int quantityArmies
```
      A territory must have one or more armies on it.
    - occupier
```
IXholon occupier
```
      The player who currently occupies this territory.
- Class org.primordion.user.app.Risk.XhRisk extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.Simple1d
- Class org.primordion.user.app.Simple1d.App1dSimple extends Application implements Serializable
- Class org.primordion.user.app.Simple1d.GridPanel1dSimple extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.Simple1d.Xh1dSimple extends AbstractGrid implements Serializable
  - Serialized Fields
    - alive
```
boolean alive
```
Package org.primordion.user.app.solarsystem
- Class org.primordion.user.app.solarsystem.AstronomicalObject extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
      ex: "Earth"
    - uri
```
java.lang.String uri
```
      Uniform Resource Identifier
    - mass
```
double mass
```
      Mass of the object. Mass of the Earth 5.9736e24 kg
    - radius
```
double radius
```
      Mean radius of the object. Mean radius of Earth 6371000.0 m
    - semimajorAxis
```
double semimajorAxis
```
      Semi-major axis. Approximately the mean distance between the object and the primary object that it orbits. Mean distance between the planet and its primary star. mean distance from Earth to Sun (1 astronomical unit AU) = 149,597,870.7 km (1.496e11 m). For a StarSystem, this would be the distance to the center of its galaxy.
    - temperature
```
double temperature
```
      Effective temperature of the object. Sun Photosphere (effective) = 5778 K
- Class org.primordion.user.app.solarsystem.NaturalSatellite extends AstronomicalObject implements Serializable
- Class org.primordion.user.app.solarsystem.Planet extends AstronomicalObject implements Serializable
- Class org.primordion.user.app.solarsystem.Space extends XholonWithPorts implements Serializable
  - Serialized Fields
    - planets
```
IXholon planets
```
- Class org.primordion.user.app.solarsystem.Star extends AstronomicalObject implements Serializable
  - Serialized Fields
    - space
```
IXholon space
```
      The star radiates energy to space.
    - luminosity
```
double luminosity
```
      The star's radiative flux in watts (W). 1 watt = 1 Joule/second. The luminosity of the Sun is 3.846×10^26 W or 3.9x10^26 W or 3.846e26
      
      See Also:
      wikipedia Luminosity "the amount of electromagnetic energy a body radiates per unit of time."
      "the luminosity of a star L (assuming the star is a black body, which is a good approximation) is also related to temperature T and radius R of the star by the equation: L = 4 * pi * R^2 * sigma * T^4 where σ is the Stefan-Boltzmann constant 5.67×10−8 W·m-2·K-4 "
- Class org.primordion.user.app.solarsystem.SunspotCycleAO extends XholonWithPorts implements Serializable
  - Serialized Fields
    - star
```
IXholon star
```
      The star (ex: Sun) where the sunspots are located.
    - baseTemperature
```
double baseTemperature
```
    - minSunspots
```
double minSunspots
```
    - multiplier
```
double multiplier
```
Package org.primordion.user.app.SpatialGames
- Class org.primordion.user.app.SpatialGames.App09SpatialGames extends Application implements Serializable
- Class org.primordion.user.app.SpatialGames.GridPanel09SpatialGames extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.SpatialGames.Xh09SpatialGames extends AbstractGrid implements Serializable
  - Serialized Fields
    - payoff
```
double payoff
```
    - bestNeighbor
```
Xh09SpatialGames bestNeighbor
```
    - oldXhcId
```
int oldXhcId
```
Package org.primordion.user.app.SpringIdol
- Class org.primordion.user.app.SpringIdol.AppSpringIdol extends Application implements Serializable
  
  serialVersionUID:
  
  3807984227528586094L
- Class org.primordion.user.app.SpringIdol.Cymbal extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.Damoyselle extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.Guitar extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.Harmonica extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.Instrumentalist extends XholonWithPorts implements Serializable
  - Serialized Fields
    - song
```
Song song
```
    - instrument
```
Instrument instrument
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.user.app.SpringIdol.Juggler extends XholonWithPorts implements Serializable
  - Serialized Fields
    - beanBags
```
int beanBags
```
- Class org.primordion.user.app.SpringIdol.OneManBand extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.user.app.SpringIdol.PerformanceException extends java.lang.RuntimeException implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.SpringIdol.Piano extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.PoeticJuggler extends Juggler implements Serializable
  - Serialized Fields
    - poem
```
Poem poem
```
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.user.app.SpringIdol.Saxophone extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.Singer extends XholonWithPorts implements Serializable
  - Serialized Fields
    - name
```
java.lang.String name
```
    - song
```
Song song
```
- Class org.primordion.user.app.SpringIdol.Song extends XholonWithPorts implements Serializable
  - Serialized Fields
    - title
```
java.lang.String title
```
- Class org.primordion.user.app.SpringIdol.TheRaven extends XholonWithPorts implements Serializable
- Class org.primordion.user.app.SpringIdol.XhSpringIdol extends XholonWithPorts implements Serializable
  - Serialized Fields
    - performers
```
Performer[] performers
```
Package org.primordion.user.app.StupidModel.sm1
- Class org.primordion.user.app.StupidModel.sm1.AppStupidModel1 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm1.BugStupidModel1 extends XhStupidModel1 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
- Class org.primordion.user.app.StupidModel.sm1.GridPanelStupidModel1 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm1.XhStupidModel1 extends XholonWithPorts implements Serializable
Package org.primordion.user.app.StupidModel.sm10
- Class org.primordion.user.app.StupidModel.sm10.AppStupidModel10 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm10.BugStupidModel10 extends XhStupidModel10 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm10.GridPanelStupidModel10 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm10.HabitatCellStupidModel10 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm10.QueueStupidModel10 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm10.XhStupidModel10 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm11
- Class org.primordion.user.app.StupidModel.sm11.AppStupidModel11 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm11.BugStupidModel11 extends XhStupidModel11 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm11.GridPanelStupidModel11 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm11.HabitatCellStupidModel11 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm11.QueueStupidModel11 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm11.XhStupidModel11 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm12
- Class org.primordion.user.app.StupidModel.sm12.AppStupidModel12 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm12.BugStupidModel12 extends XhStupidModel12 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm12.GridPanelStupidModel12 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm12.HabitatCellStupidModel12 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm12.QueueStupidModel12 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm12.XhStupidModel12 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm13
- Class org.primordion.user.app.StupidModel.sm13.AppStupidModel13 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm13.BugStupidModel13 extends XhStupidModel13 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm13.GridPanelStupidModel13 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm13.HabitatCellStupidModel13 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm13.QueueStupidModel13 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm13.XhStupidModel13 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm14
- Class org.primordion.user.app.StupidModel.sm14.AppStupidModel14 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm14.BugStupidModel14 extends XhStupidModel14 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm14.GridPanelStupidModel14 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm14.HabitatCellStupidModel14 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm14.QueueStupidModel14 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm14.XhStupidModel14 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm15
- Class org.primordion.user.app.StupidModel.sm15.AppStupidModel15 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm15.BugStupidModel15 extends XhStupidModel15 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm15.GridPanelStupidModel15 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm15.HabitatCellStupidModel15 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
    - foodProductionRate
```
double foodProductionRate
```
- Class org.primordion.user.app.StupidModel.sm15.QueueStupidModel15 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm15.XhStupidModel15 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm16
- Class org.primordion.user.app.StupidModel.sm16.AppStupidModel16 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm16.BugStupidModel16 extends XhStupidModel16 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm16.GridPanelStupidModel16 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm16.HabitatCellStupidModel16 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
    - foodProductionRate
```
double foodProductionRate
```
- Class org.primordion.user.app.StupidModel.sm16.QueueStupidModel16 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm16.XhStupidModel16 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm16nl
- Class org.primordion.user.app.StupidModel.sm16nl.AppStupidModel16nl extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm16nl.BugStupidModel16nl extends Turtle implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm16nl.GridPanelStupidModel16nl extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm16nl.HabitatCellStupidModel16nl extends Patch implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
    - foodProductionRate
```
double foodProductionRate
```
- Class org.primordion.user.app.StupidModel.sm16nl.QueueStupidModel16nl extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm16nl.XhStupidModel16nl extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm2
- Class org.primordion.user.app.StupidModel.sm2.AppStupidModel2 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm2.BugStupidModel2 extends XhStupidModel2 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm2.GridPanelStupidModel2 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm2.XhStupidModel2 extends XholonWithPorts implements Serializable
Package org.primordion.user.app.StupidModel.sm3
- Class org.primordion.user.app.StupidModel.sm3.AppStupidModel3 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm3.BugStupidModel3 extends XhStupidModel3 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm3.GridPanelStupidModel3 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm3.HabitatCellStupidModel3 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm3.XhStupidModel3 extends XholonWithPorts implements Serializable
Package org.primordion.user.app.StupidModel.sm4
- Class org.primordion.user.app.StupidModel.sm4.AppStupidModel4 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm4.BugStupidModel4 extends XhStupidModel4 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm4.GridPanelStupidModel4 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm4.HabitatCellStupidModel4 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm4.XhStupidModel4 extends XholonWithPorts implements Serializable
Package org.primordion.user.app.StupidModel.sm5
- Class org.primordion.user.app.StupidModel.sm5.AppStupidModel5 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm5.BugStupidModel5 extends XhStupidModel5 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm5.GridPanelStupidModel5 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm5.HabitatCellStupidModel5 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm5.XhStupidModel5 extends XholonWithPorts implements Serializable
Package org.primordion.user.app.StupidModel.sm5tg
- Class org.primordion.user.app.StupidModel.sm5tg.AppStupidModel5tg extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm5tg.BugStupidModel5tg extends XhStupidModel5tg implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm5tg.GridPanelStupidModel5tg extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm5tg.HabitatCellStupidModel5tg extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm5tg.XhStupidModel5tg extends XholonWithPorts implements Serializable
Package org.primordion.user.app.StupidModel.sm6
- Class org.primordion.user.app.StupidModel.sm6.AppStupidModel6 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm6.BugStupidModel6 extends XhStupidModel6 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm6.GridPanelStupidModel6 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm6.HabitatCellStupidModel6 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm6.XhStupidModel6 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm7
- Class org.primordion.user.app.StupidModel.sm7.AppStupidModel7 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm7.BugStupidModel7 extends XhStupidModel7 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm7.GridPanelStupidModel7 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm7.HabitatCellStupidModel7 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm7.XhStupidModel7 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm8
- Class org.primordion.user.app.StupidModel.sm8.AppStupidModel8 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm8.BugStupidModel8 extends XhStupidModel8 implements Serializable
  - Serialized Fields
    - lastMoved
```
int lastMoved
```
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm8.GridPanelStupidModel8 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm8.HabitatCellStupidModel8 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm8.XhStupidModel8 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.StupidModel.sm9
- Class org.primordion.user.app.StupidModel.sm9.AppStupidModel9 extends Application implements Serializable
- Class org.primordion.user.app.StupidModel.sm9.BugStupidModel9 extends XhStupidModel9 implements Serializable
  - Serialized Fields
    - bugSize
```
double bugSize
```
- Class org.primordion.user.app.StupidModel.sm9.GridPanelStupidModel9 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.StupidModel.sm9.HabitatCellStupidModel9 extends GridEntity implements Serializable
  - Serialized Fields
    - foodAvailability
```
double foodAvailability
```
- Class org.primordion.user.app.StupidModel.sm9.QueueStupidModel9 extends Queue implements Serializable
- Class org.primordion.user.app.StupidModel.sm9.XhStupidModel9 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.TestFsm
- Class org.primordion.user.app.TestFsm.AppTestFsmKW extends Application implements Serializable
- Class org.primordion.user.app.TestFsm.XhTestFsmKW extends XholonWithPorts implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.testNodePorts
- Class org.primordion.user.app.testNodePorts.ApptestNodePorts extends Application implements Serializable
- Class org.primordion.user.app.testNodePorts.XhtestNodePorts extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - three
```
IXholon three
```
    - ff
```
IXholon[] ff
```
Package org.primordion.user.app.Turnstile
- Class org.primordion.user.app.Turnstile.AppTurnstile extends Application implements Serializable
- Class org.primordion.user.app.Turnstile.XhTurnstile extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.TurtleExample1
- Class org.primordion.user.app.TurtleExample1.AppTurtleExample1 extends Application implements Serializable
- Class org.primordion.user.app.TurtleExample1.GridPanelTurtleExample1 extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.app.TurtleExample1.TurtleExample extends Turtle implements Serializable
  - Serialized Fields
    - recurseArg
```
double recurseArg
```
- Class org.primordion.user.app.TurtleExample1.XhTurtleExample1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.TweenTrees
- Class org.primordion.user.app.TweenTrees.AppTweenTrees extends Application implements Serializable
- Class org.primordion.user.app.TweenTrees.XhTweenTrees extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.app.WaterLogic
- Class org.primordion.user.app.WaterLogic.AppWaterLogic extends Application implements Serializable
- Class org.primordion.user.app.WaterLogic.XhWaterLogic extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
boolean val
```
Package org.primordion.user.app.WolfSheepGrass
- Class org.primordion.user.app.WolfSheepGrass.AppWolfSheepGrass extends Application implements Serializable
- Class org.primordion.user.app.WolfSheepGrass.Grass extends Patch implements Serializable
  - Serialized Fields
    - countdown
```
int countdown
```
- Class org.primordion.user.app.WolfSheepGrass.GridPanelWolfSheepGrass extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - brown
```
CssColor brown
```
    - green
```
CssColor green
```
- Class org.primordion.user.app.WolfSheepGrass.WolfSheep extends Turtle implements Serializable
  - Serialized Fields
    - energy
```
double energy
```
    - isGrabbed
```
boolean isGrabbed
```
- Class org.primordion.user.app.WolfSheepGrass.XhWolfSheepGrass extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.app.XBar
- Class org.primordion.user.app.XBar.AppXBar_ex1 extends Application implements Serializable
- Class org.primordion.user.app.XBar.XhXBar_ex1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
java.lang.String val
```
    - fval
```
float fval
```
Package org.primordion.user.xmiapps.__XholonTemplate__
- Class org.primordion.user.xmiapps.__XholonTemplate__.App__XholonTemplate__ extends Application implements Serializable
- Class org.primordion.user.xmiapps.__XholonTemplate__.GridPanel__XholonTemplate__ extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.xmiapps.__XholonTemplate__.Xh__XholonTemplate__ extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.xmiapps.beard41
- Class org.primordion.user.xmiapps.beard41.AppBeard2005_UML_Xholon_Step4_v1 extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
- Class org.primordion.user.xmiapps.beard41.XhBeard2005_UML_Xholon_Step4_v1 extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.xmiapps.Elevator
- Class org.primordion.user.xmiapps.Elevator.AppElevator extends Application implements Serializable
- Class org.primordion.user.xmiapps.Elevator.AppElevator_ShowStates extends Application implements Serializable
- Class org.primordion.user.xmiapps.Elevator.XhElevator extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - lockRequested
```
boolean lockRequested
```
    - currentDirection
```
int currentDirection
```
    - destinationFloor
```
int destinationFloor
```
    - arrivalFloor
```
int arrivalFloor
```
    - cycleNoDest
```
int cycleNoDest
```
    - hoistDestination
```
byte[] hoistDestination
```
    - dispatchDestination
```
byte[] dispatchDestination
```
    - xhTime
```
IXholonTime xhTime
```
Package org.primordion.user.xmiapps.Fsm06ex1_Fsm
- Class org.primordion.user.xmiapps.Fsm06ex1_Fsm.AppFsm06ex1_FsmXmi extends Application implements Serializable
- Class org.primordion.user.xmiapps.Fsm06ex1_Fsm.XhFsm06ex1_Fsm extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - mChoice
```
int mChoice
```
Package org.primordion.user.xmiapps.HelloWorldTutorial
- Class org.primordion.user.xmiapps.HelloWorldTutorial.AppHelloWorldTutorial extends Application implements Serializable
- Class org.primordion.user.xmiapps.HelloWorldTutorial.XhHelloWorldTutorial extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiapps.HelloWorldTutorial_multiWorld
- Class org.primordion.user.xmiapps.HelloWorldTutorial_multiWorld.AppHelloWorldTutorial_multiWorld extends Application implements Serializable
- Class org.primordion.user.xmiapps.HelloWorldTutorial_multiWorld.XhHelloWorldTutorial_multiWorld extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiapps.HelloWorldTutorial_plus
- Class org.primordion.user.xmiapps.HelloWorldTutorial_plus.AppHelloWorldTutorial_plus extends Application implements Serializable
- Class org.primordion.user.xmiapps.HelloWorldTutorial_plus.XhHelloWorldTutorial_plus extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.xmiapps.HelloWorldTutorial_universe
- Class org.primordion.user.xmiapps.HelloWorldTutorial_universe.AppHelloWorldTutorial_universe extends Application implements Serializable
- Class org.primordion.user.xmiapps.HelloWorldTutorial_universe.XhHelloWorldTutorial_universe extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiapps.ProvidedRequiredTest
- Class org.primordion.user.xmiapps.ProvidedRequiredTest.AppProvidedRequiredTest extends Application implements Serializable
- Class org.primordion.user.xmiapps.ProvidedRequiredTest.XhProvidedRequiredTest extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiapps.Rcs_GP_FSM
- Class org.primordion.user.xmiapps.Rcs_GP_FSM.AppRcs_GP_FSM extends Application implements Serializable
- Class org.primordion.user.xmiapps.Rcs_GP_FSM.XhRcs_GP_FSM extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
Package org.primordion.user.xmiapps.Rcs_GP_FSM_Grid
- Class org.primordion.user.xmiapps.Rcs_GP_FSM_Grid.AppRcs_GP_FSM_Grid extends Application implements Serializable
- Class org.primordion.user.xmiapps.Rcs_GP_FSM_Grid.GridPanelRcs_GP_FSM_Grid extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.user.xmiapps.Rcs_GP_FSM_Grid.XhRcs_GP_FSM_Grid extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - hasMoved
```
boolean hasMoved
```
    - val
```
double val
```
Package org.primordion.user.xmiapps.Rcs_GP_MM
- Class org.primordion.user.xmiapps.Rcs_GP_MM.AppRcs_GP_MM extends Application implements Serializable
- Class org.primordion.user.xmiapps.Rcs_GP_MM.XhRcs_GP_MM extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiapps.Rcs_GP_MM_NoSymbols
- Class org.primordion.user.xmiapps.Rcs_GP_MM_NoSymbols.AppRcs_GP_MM_NoSymbols extends Application implements Serializable
- Class org.primordion.user.xmiapps.Rcs_GP_MM_NoSymbols.XhRcs_GP_MM_NoSymbols extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiapps.StopWatch
- Class org.primordion.user.xmiapps.StopWatch.AppStopWatch extends Application implements Serializable
- Class org.primordion.user.xmiapps.StopWatch.XhStopWatch extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - state
```
int state
```
Package org.primordion.user.xmiapps.StopWatch_Xhym
- Class org.primordion.user.xmiapps.StopWatch_Xhym.AppStopWatch_Xhym extends Application implements Serializable
- Class org.primordion.user.xmiapps.StopWatch_Xhym.XhStopWatch_Xhym extends ObservableXholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - state
```
int state
```
Package org.primordion.user.xmiapps.TestFsm
- Class org.primordion.user.xmiapps.TestFsm.AppTestFsm extends Application implements Serializable
- Class org.primordion.user.xmiapps.TestFsm.XhTestFsm extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - aDouble
```
double aDouble
```
    - aString
```
java.lang.String aString
```
    - aLong
```
long[] aLong
```
    - aBooleanTrue
```
boolean aBooleanTrue
```
    - aChar
```
char aChar
```
    - aByte
```
byte aByte
```
    - aShort
```
short aShort
```
    - aFloat
```
float aFloat
```
    - anInteger
```
java.lang.Integer anInteger
```
    - myInteger
```
java.lang.Integer myInteger
```
    - state
```
int state
```
    - aBooleanFalse
```
boolean aBooleanFalse
```
Package org.primordion.user.xmiapps.TestFsmForkJoin
- Class org.primordion.user.xmiapps.TestFsmForkJoin.AppTestFsmForkJoin extends Application implements Serializable
- Class org.primordion.user.xmiapps.TestFsmForkJoin.XhTestFsmForkJoin extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - state
```
int state
```
Package org.primordion.user.xmiapps.TestFsmHistory
- Class org.primordion.user.xmiapps.TestFsmHistory.AppTestFsmHistory extends Application implements Serializable
- Class org.primordion.user.xmiapps.TestFsmHistory.XhTestFsmHistory extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - state
```
int state
```
Package org.primordion.user.xmiapps.TestFsmJunction
- Class org.primordion.user.xmiapps.TestFsmJunction.AppTestFsmJunction extends Application implements Serializable
- Class org.primordion.user.xmiapps.TestFsmJunction.XhTestFsmJunction extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - state
```
int state
```
Package org.primordion.user.xmiapps.TestFsmOrthogonal
- Class org.primordion.user.xmiapps.TestFsmOrthogonal.AppTestFsmOrthogonal extends Application implements Serializable
- Class org.primordion.user.xmiapps.TestFsmOrthogonal.XhTestFsmOrthogonal extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - state
```
int state
```
Package org.primordion.user.xmiapps.Watch
- Class org.primordion.user.xmiapps.Watch.AppWatch extends Application implements Serializable
- Class org.primordion.user.xmiapps.Watch.XhWatch extends XholonWithPorts implements Serializable
Package org.primordion.user.xmiappsArgoUML
- Class org.primordion.user.xmiappsArgoUML.AppHelloWorldTutorialArgoUML extends Application implements Serializable
- Class org.primordion.user.xmiappsArgoUML.XhHelloWorldTutorial extends XholonWithPorts implements Serializable
Package org.primordion.user.xmiappsTc.HelloWorldTutorial
- Class org.primordion.user.xmiappsTc.HelloWorldTutorial.AppHelloWorldTutorialTc extends Application implements Serializable
- Class org.primordion.user.xmiappsTc.HelloWorldTutorial.XhHelloWorldTutorial extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiappsTc.StateMachineOnly
- Class org.primordion.user.xmiappsTc.StateMachineOnly.AppStateMachineOnly extends Application implements Serializable
- Class org.primordion.user.xmiappsTc.StateMachineOnly.XhStateMachineOnly extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.user.xmiappsTcSysML
- Class org.primordion.user.xmiappsTcSysML.AppHelloWorldTutorialSysML extends Application implements Serializable
- Class org.primordion.user.xmiappsTcSysML.XhHelloWorldTutorialSysML extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
Package org.primordion.xholon.app
- Class org.primordion.xholon.app.AbstractApplication extends Xholon implements Serializable
- Class org.primordion.xholon.app.Application extends AbstractApplication implements Serializable
  
  serialVersionUID:
  
  5911227929337012857L
  - Serialized Fields
    - inheritanceHierarchyFile
```
java.lang.String inheritanceHierarchyFile
```
      Name of the inheritance hierachy file.
    - compositeStructureHierarchyFile
```
java.lang.String compositeStructureHierarchyFile
```
      Name of the composite structure hierarchy file.
    - classDetailsFile
```
java.lang.String classDetailsFile
```
      Name of the class details file.
    - informationFile
```
java.lang.String informationFile
```
      Name of the information file.
    - imageFile
```
java.lang.String imageFile
```
      Name of an optional image file, typically SVG such as "default.svg".
    - maxXholons
```
int maxXholons
```
      Maximum number of Xholons to use in the application.
    - maxXholonClasses
```
int maxXholonClasses
```
      Maximum number of Xholon classes to use in the application.
    - maxStateMachineEntities
```
int maxStateMachineEntities
```
      Maximum number of State Machine Entities to use in the application.
    - maxActivities
```
int maxActivities
```
      Maximum number of Activities to use in the application.
    - maxProcessLoops
```
int maxProcessLoops
```
      Number of times to loop within process() = maximum number of time steps. -1 = loop forever = infinite number of time steps
    - timeStepInterval
```
int timeStepInterval
```
      Time step interval. Number of milliseconds per time step. 0 = max speed. 10 = 10 milliseconds per time step = 100 time steps per second. 1000 = 1000 milliseconds per time step = 1 second per time step = 1 time step per second. 0 = logical time. Any other positive value = physical time (clock time).
    - shouldStepView
```
boolean shouldStepView
```
      Whether or not to call view.act() each timeStep.
    - useTextTree
```
boolean useTextTree
```
      Whether to use simple 2D text tree drawer.
    - useGraphicalTreeViewer
```
boolean useGraphicalTreeViewer
```
      Whether to use the JUNG graphical tree viewer.
    - graphicalTreeViewerParams
```
java.lang.String graphicalTreeViewerParams
```
      Graphical tree viewer parameters.
    - useGraphicalNetworkViewer
```
boolean useGraphicalNetworkViewer
```
      Whether to use the JUNG graphical network viewer.
    - graphicalNetworkViewerClassName
```
java.lang.String graphicalNetworkViewerClassName
```
    - graphicalNetworkViewerParams
```
java.lang.String graphicalNetworkViewerParams
```
      Graphical tree viewer parameters.
    - useGridViewer
```
boolean useGridViewer
```
      Whether to use a graphical grid viewer.
    - gridPanelClassName
```
java.lang.String gridPanelClassName
```
      Name of the GridViewer Panel Java class.
    - useDataPlotter
```
boolean useDataPlotter
```
      Whether to use a data plotter (google2, gnuplot, c3, nvd3, none).
    - dataPlotterParams
```
java.lang.String dataPlotterParams
```
    - useJFreeChart
```
boolean useJFreeChart
```
    - useGnuplot
```
boolean useGnuplot
```
    - useJdbc
```
boolean useJdbc
```
    - useJpa
```
boolean useJpa
```
    - useGoogle
```
boolean useGoogle
```
    - useGoogle2
```
boolean useGoogle2
```
    - useC3
```
boolean useC3
```
    - useNVD3
```
boolean useNVD3
```
    - useHistogramPlotter
```
boolean useHistogramPlotter
```
      Whether to use a histogram plotter (google2, gnuplot, none).
    - histogramPlotterParams
```
java.lang.String histogramPlotterParams
```
    - useJFreeChart_Hist
```
boolean useJFreeChart_Hist
```
    - useGnuplot_Hist
```
boolean useGnuplot_Hist
```
    - useGoogle2_Hist
```
boolean useGoogle2_Hist
```
    - useD3_Hist
```
boolean useD3_Hist
```
    - interactionsEnabled
```
boolean interactionsEnabled
```
      whether or not to capture Interactions
    - interactionParams
```
java.lang.String interactionParams
```
      Interaction params
    - useVrml
```
boolean useVrml
```
      Whether to use VRML 3D graphics output.
    - vrmlWriterClassName
```
java.lang.String vrmlWriterClassName
```
      Name of the VrmlWriter Java class.
    - vrmlParams
```
java.lang.String vrmlParams
```
      VRML 3D parameters
    - javaClassName
```
java.lang.String javaClassName
```
      Name of the concrete application class.
    - javaXhClassName
```
java.lang.String javaXhClassName
```
      Name of the concrete Xh class.
    - javaXhClassClassName
```
java.lang.String javaXhClassClassName
```
      Name of the concrete IXholonClass.
    - javaActivityClassName
```
java.lang.String javaActivityClassName
```
      Name of the concrete activity class.
    - saveSnapshots
```
boolean saveSnapshots
```
      Whether to save snapshots to XML files.
    - snapshotParams
```
java.lang.String snapshotParams
```
      Snapshot parameters. see Snapshot.java for full description of each param
    - scriptParams
```
java.lang.String scriptParams
```
      Script parameters, for use by ScriptService.
    - modelName
```
java.lang.String modelName
```
      Name of the model.
    - treeNodeFactoryDynamic
```
boolean treeNodeFactoryDynamic
```
      Whether to use TreeNodeFactoryDynamic or TreeNodeFactoryStatic.
    - randomNumberSeed
```
long randomNumberSeed
```
      Seed for random number generator.
    - maxPorts
```
int maxPorts
```
      Maximum number of ports that a xholon instance can have.
    - xincludePath
```
java.lang.String xincludePath
```
      xincludePath
    - xhymAgent
```
java.lang.String xhymAgent
```
      Xhym agent.
    - useXholon2Gui
```
boolean useXholon2Gui
```
      Whether or not to create a web or other special purpose GUI.
    - xholon2GuiParams
```
java.lang.String xholon2GuiParams
```
      Xholon2Gui parameters.
    - xholon2GuiClassName
```
java.lang.String xholon2GuiClassName
```
      The concrete class that implements the IXholon2Gui interface.
    - jdbcParams
```
java.lang.String jdbcParams
```
      JDBC parameters
    - jpaParams
```
java.lang.String jpaParams
```
      JPA parameters
    - iQueueImplName
```
java.lang.String iQueueImplName
```
      Name of the Java class that implements IQueue.
    - initialControllerState
```
int initialControllerState
```
      Controller state when an app first starts up. The possible values are found in IControl. The most common initial values are:
      IControl.CS_INITIALIZED = 2
      
      IControl.CS_RUNNING = 3
    - attributePostConfigAction
```
int attributePostConfigAction
```
      Action that an Attribute node should take during its postConfigure() method. See IAttribute.java for a list of possible values.
    - roleName
```
java.lang.String roleName
```
      role name
    - factory
```
ITreeNodeFactory factory
```
      Factory.
    - srvRoot
```
IXholon srvRoot
```
      Root of XholonService node hierarchy.
    - controlRoot
```
IControl controlRoot
```
      Root of the top level Control hierarchy.
    - defaultMechanism
```
IMechanism defaultMechanism
```
      The default mechanism if no other one is specified. ex: http://www.primordion.com/namespace/Xholon
    - xhcRoot
```
IXholonClass xhcRoot
```
      Root of XholonClass node hierarchy.
    - root
```
IXholon root
```
      Root of Xholon node hierarchy.
    - treeViewerJung
```
IGraphicalTreeViewer treeViewerJung
```
      Tree viewer implemented by the JUNG software.
    - networkViewerJung
```
IGraphicalNetworkViewer networkViewerJung
```
      Network viewer implemented by the JUNG software.
    - view
```
IControl view
```
      View.
    - appRoot
```
IXholon appRoot
```
      Application root.
    - applet
```
boolean applet
```
      Whether or not this app is running in an applet environment.
    - chartViewer
```
IChartViewer chartViewer
```
      Chart.
    - histogramViewer
```
IHistogramViewer histogramViewer
```
      Histogram viewer.
    - processTimer
```
Timer processTimer
```
      GWT Timer used by process() loop.
    - noGui
```
boolean noGui
```
      Whether or not the tree GUI is being used. GWT
    - workbookId
```
java.lang.String workbookId
```
      Optional ID of a XholonWorkbook that should be loaded at config-time, typically as a last child of root in a Chameleon app. ex: "gist123456" "gist3457105"
    - workbookFileName
```
java.lang.String workbookFileName
```
      Name of the file to be loaded from a gist (XholonWorkbook). Typically, this is just the default "xholonWorkbook.xml". ex: "crn_1987_6_7_csh.xml"
    - workbookBundle
```
XholonWorkbookBundle workbookBundle
```
      An optional XholonWorkbook bundle, containing alternate user-defined content for the current Java-based app. This can be used while initializing the app.
- Class org.primordion.xholon.app.ApplicationNull extends Application implements Serializable
  
  serialVersionUID:
  
  4858444403646789402L
Package org.primordion.xholon.app.Chameleon
- Class org.primordion.xholon.app.Chameleon.AppChameleon extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
      how many time step intervals to chart
- Class org.primordion.xholon.app.Chameleon.XhChameleon extends XholonWithPorts implements Serializable
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
    - forwardees
```
java.util.Map<K,V> forwardees
```
Package org.primordion.xholon.app.Furcifer
- Class org.primordion.xholon.app.Furcifer.AppFurcifer extends Application implements Serializable
  - Serialized Fields
    - chartInterval
```
int chartInterval
```
      how many time step intervals to chart
- Class org.primordion.xholon.app.Furcifer.FurciferAll extends XhFurcifer implements Serializable
  - Serialized Fields
    - state
```
int state
```
    - roleName
```
java.lang.String roleName
```
    - val
```
double val
```
    - val_String
```
java.lang.String val_String
```
    - val_Object
```
java.lang.Object val_Object
```
    - anno
```
java.lang.String anno
```
- Class org.primordion.xholon.app.Furcifer.Galaxy extends FurciferAll implements Serializable
  - Serialized Fields
    - otherGal
```
IXholon otherGal
```
- Class org.primordion.xholon.app.Furcifer.XhFurcifer extends XholonWithPorts implements Serializable
  - Serialized Fields
    - forwardees
```
java.util.Map<K,V> forwardees
```
Package org.primordion.xholon.base
- Class org.primordion.xholon.base.AbstractGrid extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  5738597062063499371L
- Class org.primordion.xholon.base.AbstractXPath extends Xholon implements Serializable
  
  serialVersionUID:
  
  2963976821200741490L
- Class org.primordion.xholon.base.Activity extends Xholon implements Serializable
  
  serialVersionUID:
  
  3858664681234166956L
- Class org.primordion.xholon.base.AgentSet extends java.util.ArrayList implements Serializable
  
  serialVersionUID:
  
  2712924385668946213L
- Class org.primordion.xholon.base.Annotation extends Xholon implements Serializable
  
  serialVersionUID:
  
  4444110948091750196L
  - Serialized Fields
    - val
```
java.lang.String val
```
      The text of the annotation.
- Class org.primordion.xholon.base.Attribute extends Xholon implements Serializable
  
  serialVersionUID:
  
  -4446997600412434700L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.base.Attribute.Attribute_arrayboolean extends Attribute implements Serializable
  
  serialVersionUID:
  
  -3805032920122827420L
  - Serialized Fields
    - val
```
boolean[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arraybyte extends Attribute implements Serializable
  
  serialVersionUID:
  
  7270303052548363525L
  - Serialized Fields
    - val
```
byte[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arraychar extends Attribute implements Serializable
  
  serialVersionUID:
  
  -8448083022364276840L
  - Serialized Fields
    - val
```
char[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arraydouble extends Attribute implements Serializable
  
  serialVersionUID:
  
  -4396009851153953473L
  - Serialized Fields
    - val
```
double[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arrayfloat extends Attribute implements Serializable
  
  serialVersionUID:
  
  -5139669355797913930L
  - Serialized Fields
    - val
```
float[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arrayint extends Attribute implements Serializable
  
  serialVersionUID:
  
  780579722186155691L
  - Serialized Fields
    - val
```
int[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arraylong extends Attribute implements Serializable
  
  serialVersionUID:
  
  6924362071678279130L
  - Serialized Fields
    - val
```
long[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arrayObject extends Attribute implements Serializable
  
  serialVersionUID:
  
  -8105781732002105944L
  - Serialized Fields
    - val
```
java.lang.Object[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arrayshort extends Attribute implements Serializable
  
  serialVersionUID:
  
  8467934378037451576L
  - Serialized Fields
    - val
```
short[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_arrayString extends Attribute implements Serializable
  
  serialVersionUID:
  
  1792938530317052361L
  - Serialized Fields
    - val
```
java.lang.String[] val
```
- Class org.primordion.xholon.base.Attribute.Attribute_attribute extends Attribute implements Serializable
  
  serialVersionUID:
  
  6375622248743474049L
  - Serialized Fields
    - val
```
java.lang.String val
```
- Class org.primordion.xholon.base.Attribute.Attribute_boolean extends Attribute implements Serializable
  
  serialVersionUID:
  
  7048598301305003671L
  - Serialized Fields
    - val
```
boolean val
```
- Class org.primordion.xholon.base.Attribute.Attribute_byte extends Attribute implements Serializable
  
  serialVersionUID:
  
  -8039045864733733940L
  - Serialized Fields
    - val
```
byte val
```
- Class org.primordion.xholon.base.Attribute.Attribute_char extends Attribute implements Serializable
  
  serialVersionUID:
  
  7008226625600629544L
  - Serialized Fields
    - val
```
char val
```
- Class org.primordion.xholon.base.Attribute.Attribute_double extends Attribute implements Serializable
  
  serialVersionUID:
  
  7945138659891206923L
  - Serialized Fields
    - val
```
double val
```
- Class org.primordion.xholon.base.Attribute.Attribute_float extends Attribute implements Serializable
  
  serialVersionUID:
  
  8229921751807872667L
  - Serialized Fields
    - val
```
float val
```
- Class org.primordion.xholon.base.Attribute.Attribute_int extends Attribute implements Serializable
  
  serialVersionUID:
  
  -6173634077939670129L
  - Serialized Fields
    - val
```
int val
```
- Class org.primordion.xholon.base.Attribute.Attribute_List extends Attribute implements Serializable
  
  serialVersionUID:
  
  4122140090663123477L
  - Serialized Fields
    - val
```
java.util.List<E> val
```
- Class org.primordion.xholon.base.Attribute.Attribute_long extends Attribute implements Serializable
  
  serialVersionUID:
  
  3506829186754046366L
  - Serialized Fields
    - val
```
long val
```
- Class org.primordion.xholon.base.Attribute.Attribute_Map extends Attribute implements Serializable
  
  serialVersionUID:
  
  -2628519405219874453L
  - Serialized Fields
    - val
```
java.util.Map<K,V> val
```
- Class org.primordion.xholon.base.Attribute.Attribute_Object extends Attribute implements Serializable
  
  serialVersionUID:
  
  -5707382871115794115L
  - Serialized Fields
    - val
```
java.lang.Object val
```
- Class org.primordion.xholon.base.Attribute.Attribute_Set extends Attribute implements Serializable
  
  serialVersionUID:
  
  6460252108608830570L
  - Serialized Fields
    - val
```
java.util.Set<E> val
```
- Class org.primordion.xholon.base.Attribute.Attribute_short extends Attribute implements Serializable
  
  serialVersionUID:
  
  2846492124747564125L
  - Serialized Fields
    - val
```
short val
```
- Class org.primordion.xholon.base.Attribute.Attribute_String extends Attribute implements Serializable
  
  serialVersionUID:
  
  -1388653838650753866L
  - Serialized Fields
    - val
```
java.lang.String val
```
- Class org.primordion.xholon.base.Behavior_gwtjs extends Xholon implements Serializable
  - Serialized Fields
    - scriptLanguage
```
java.lang.String scriptLanguage
```
      The scripting language used.
      ex: "javascript" "beanshell" "groovy"
    - scriptContent
```
java.lang.String scriptContent
```
      The actual script content.
    - scriptConfigured
```
boolean scriptConfigured
```
    - beh
```
JavaScriptObject beh
```
      The JavaScript object.
    - hasPreAct
```
boolean hasPreAct
```
      Does the script contain a preAct() method?
    - hasAct
```
boolean hasAct
```
      Does the script contain an act() method?
    - hasPostAct
```
boolean hasPostAct
```
      Does the script contain a postAct() method?
    - hasProcessReceivedMessage
```
boolean hasProcessReceivedMessage
```
      Does the script contain a processReceivedMessage(msg) method?
    - hasProcessReceivedSyncMessage
```
boolean hasProcessReceivedSyncMessage
```
      Does the script contain a processReceivedSyncMessage(msg) method?
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.xholon.base.Behavior_gwtjsproto extends Behavior_gwtjs implements Serializable
  - Serialized Fields
    - scriptLanguage
```
java.lang.String scriptLanguage
```
      The scripting language used.
- Class org.primordion.xholon.base.Control extends Xholon implements Serializable
  
  serialVersionUID:
  
  1903764484531724051L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
      Name of a Control object.
- Class org.primordion.xholon.base.Decoration extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  5183710640376231471L
  - Serialized Fields
    - color
```
java.lang.String color
```
      Optional color designation, for use in GUIs. ex: <Color>0xFF0000</Color>
    - font
```
java.lang.String font
```
      Optional font designation, for use in GUIs. ex: <Font>Arial-BOLD-18</Font>
    - icon
```
java.lang.String icon
```
      Optional icon designation, for use in GUIs. ex: <Icon>images/OrNode/OrNode.png</Icon>
    - toolTip
```
java.lang.String toolTip
```
      Optional toolTip designation, for use in GUIs. ex: <ToolTip>This is some tool tip text.</ToolTip>
    - symbol
```
java.lang.String symbol
```
      Optional symbol, that can be used in various ways. Typically it would be a mathematical, physics, or other standard symbol used with objects of that class. ex: <Symbol>⊕</Symbol>
    - format
```
java.lang.String format
```
      Optional String.format() value. ex: <Format>%.3f test %s</Format> ex use: String.format("%.3f test %s", myDouble, myString)
- Class org.primordion.xholon.base.GridEntity extends AbstractGrid implements Serializable
  
  serialVersionUID:
  
  -5364699196794177001L
- Class org.primordion.xholon.base.InheritanceHierarchy extends Xholon implements Serializable
  
  serialVersionUID:
  
  8449141590429484740L
  - Serialized Fields
    - searchAlgorithm
```
int searchAlgorithm
```
      Which search algorithm to use for locating a XholonClass node.
    - classNodeHt
```
java.util.Map<K,V> classNodeHt
```
      Hash table for fast searching by XholonClass name or ID.
    - rootNode
```
XholonClass rootNode
```
      Root of the inheritance hierarchy tree. This is only used if the searchAlgorithm is GETCLASSNODE_TREESEARCH.
    - xincludePath
```
java.lang.String xincludePath
```
      Java Standard Edition
- Class org.primordion.xholon.base.Interaction extends Xholon implements Serializable
  
  serialVersionUID:
  
  -6943462433347730264L
  - Serialized Fields
    - lifeline
```
java.util.Vector<E> lifeline
```
    - messageV
```
java.util.Vector<E> messageV
```
    - sentMsgQ
```
IQueue sentMsgQ
```
    - outputFormat
```
int outputFormat
```
    - socketHost
```
java.lang.String socketHost
```
    - socketPort
```
int socketPort
```
    - showStates
```
boolean showStates
```
    - excludeSystemMessages
```
boolean excludeSystemMessages
```
    - excludeAdditionalSystemMessages
```
boolean excludeAdditionalSystemMessages
```
    - maxNameLen
```
int maxNameLen
```
    - maxDataLen
```
int maxDataLen
```
    - providedRequiredInterface
```
IPortInterface providedRequiredInterface
```
      Provided/Required interface, for use with non-IPort ports/messages.
- Class org.primordion.xholon.base.Mechanism extends Xholon implements Serializable
  
  serialVersionUID:
  
  5213421348340546398L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
      The name of the mechanism. The name of the .xml file in config/_common, which is also (usually) the name of the root node for the mechanism. ex: Action StateMachineEntity SwingEntity
    - namespaceUri
```
java.lang.String namespaceUri
```
      URI that identifies the namespace for the mechanism. ex: http://www.primordion.com/namespace/Action
    - defaultPrefix
```
java.lang.String defaultPrefix
```
      Default namespace prefix. ex: actn
    - rangeStart
```
int rangeStart
```
      Start id for xholons in the mechanism.
    - rangeEnd
```
int rangeEnd
```
      End id for xholons in the mechanism.
    - decoration
```
IDecoration decoration
```
      Optional object that can contain decorations such as color, font, icon, toolTip.
- Class org.primordion.xholon.base.Message extends Xholon implements Serializable
  
  serialVersionUID:
  
  -837212903905211049L
  - Serialized Fields
    - signal
```
int signal
```
      An identifier for this message.
    - data
```
java.lang.Object data
```
      Any data that may be transmitted with the message.
- Class org.primordion.xholon.base.MessageChannel extends Xholon implements Serializable
  - Serialized Fields
    - channel
```
java.lang.Object channel
```
      An instance of a HTML5 MessageChannel.
    - otherWindow
```
java.lang.Object otherWindow
```
      The other HTML5 window.
    - message
```
java.lang.String message
```
      Message sent in initial otherWindow.postMessage(message, ...)
    - targetOrigin
```
java.lang.String targetOrigin
```
      Target origin sent in initial otherWindow.postMessage(..., targetOrigin)
- Class org.primordion.xholon.base.ObservableStateMachineEntity extends StateMachineEntity implements Serializable
  
  serialVersionUID:
  
  6916173433189740263L
  - Serialized Fields
    - observers
```
java.util.Vector<E> observers
```
      Observers that register themselves with this Observable Xholon, to be notified of changes.
    - hasChanged
```
boolean hasChanged
```
      Indicates whether or not this object has changed.
- Class org.primordion.xholon.base.ObservableXholonWithPorts extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  -7089456064587726025L
  - Serialized Fields
    - observers
```
java.util.Vector<E> observers
```
      Observers that register themselves with this Observable Xholon, to be notified of changes.
    - hasChanged
```
boolean hasChanged
```
      Indicates whether this object has changed.
- Class org.primordion.xholon.base.OrNode extends Xholon implements Serializable
  
  serialVersionUID:
  
  2647975409088204329L
  - Serialized Fields
    - onlyChild
```
IXholon onlyChild
```
      The current only child of this Or node.
    - val
```
java.lang.String val
```
      The role name of the default only child.
- Class org.primordion.xholon.base.Patch extends GridEntity implements Serializable
  
  serialVersionUID:
  
  -9121248805394228886L
  - Serialized Fields
    - pcolor
```
int pcolor
```
    - pxcor
```
int pxcor
```
    - pycor
```
int pycor
```
- Class org.primordion.xholon.base.PatchOwner extends AbstractGrid implements Serializable
  
  serialVersionUID:
  
  7575833950416416213L
  - Serialized Fields
    - maxPxcor
```
int maxPxcor
```
    - maxPycor
```
int maxPycor
```
    - minPxcor
```
int minPxcor
```
    - minPycor
```
int minPycor
```
    - nextColor
```
int nextColor
```
    - nextHeading
```
double nextHeading
```
- Class org.primordion.xholon.base.PcsPath extends Xholon implements Serializable
  
  serialVersionUID:
  
  -9075656950988101968L
- Class org.primordion.xholon.base.Port extends Xholon implements Serializable
  
  serialVersionUID:
  
  -9158800706174399310L
  - Serialized Fields
    - replication
```
IXholon[] replication
```
      Replications of this port. ref to remote port(s), or to remote xholon(s) using its nextSibling as the actual ref
    - providedInterface
```
IPortInterface providedInterface
```
      Provided interface.
    - requiredInterface
```
IPortInterface requiredInterface
```
      Required interface.
    - isConjugated
```
boolean isConjugated
```
      Whether or not this is a conjugated port.
- Class org.primordion.xholon.base.PortInformation extends Xholon implements Serializable
  - Serialized Fields
    - fieldName
```
java.lang.String fieldName
```
    - fieldNameIndex
```
int fieldNameIndex
```
    - fieldNameIndexStr
```
java.lang.String fieldNameIndexStr
```
    - reffedNode
```
IXholon reffedNode
```
    - xpathExpression
```
java.lang.String xpathExpression
```
    - shouldReturnIPortRemote
```
boolean shouldReturnIPortRemote
```
      Should toString() return the remote IXholon referenced by IPort replications. true - follow the chain and return the remote IXholon false - just return the IPort
- Class org.primordion.xholon.base.Queue extends Xholon implements Serializable
  
  serialVersionUID:
  
  -80056287055244349L
  - Serialized Fields
    - maxSize
```
int maxSize
```
    - incrementSize
```
int incrementSize
```
    - absoluteMaxSize
```
int absoluteMaxSize
```
- Class org.primordion.xholon.base.QueueSynchronized extends Xholon implements Serializable
  
  serialVersionUID:
  
  -3615575995081171242L
  - Serialized Fields
    - nextOn
```
int nextOn
```
    - nextOff
```
int nextOff
```
    - maxSize
```
int maxSize
```
    - currentSize
```
int currentSize
```
- Class org.primordion.xholon.base.Role extends Xholon implements Serializable
  
  serialVersionUID:
  
  -7829492100818122122L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
      The name of a role that a Xholon plays, within the context of its parent.
- Class org.primordion.xholon.base.StateMachineEntity extends Xholon implements Serializable
  
  serialVersionUID:
  
  2926951857788147791L
  - Serialized Fields
    - cnpt
```
IStateMachineEntity[] cnpt
```
    - roleName
```
java.lang.String roleName
```
    - uid
```
java.lang.String uid
```
    - activeSubState
```
IStateMachineEntity[] activeSubState
```
    - trigger
```
int[] trigger
```
    - activityId
```
int activityId
```
    - entryActivityId
```
int entryActivityId
```
    - exitActivityId
```
int exitActivityId
```
    - doActivityId
```
int doActivityId
```
    - numRegions
```
int numRegions
```
    - guardActivityId
```
int guardActivityId
```
- Class org.primordion.xholon.base.Turtle extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  8324399273496072903L
  - Serialized Fields
    - color
```
int color
```
    - heading
```
double heading
```
    - isHidden
```
boolean isHidden
```
    - penMode
```
int penMode
```
    - xcor
```
double xcor
```
    - ycor
```
double ycor
```
    - whenMoved
```
int whenMoved
```
- Class org.primordion.xholon.base.Xholon extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  1271821389789389499L
  - Serialized Fields
    - firstChild
```
IXholon firstChild
```
      First (leftmost) child, or null.
    - nextSibling
```
IXholon nextSibling
```
      Next (right) sibling, or null.
    - xhc
```
IXholonClass xhc
```
      Xholon Class associated with this Xholon.
- Class org.primordion.xholon.base.XholonAnonymous extends Xholon implements Serializable
  
  serialVersionUID:
  
  1170829560686826751L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.base.XholonClass extends Xholon implements Serializable
  
  serialVersionUID:
  
  -4398615727197178752L
  - Serialized Fields
    - name
```
java.lang.String name
```
      Name of the Xholon class.
    - navInfoNoVariables
```
java.lang.String navInfoNoVariables
```
      Navigation information. Stripped of V variables. To be given to Xholon instances.
    - xhType
```
int xhType
```
      Encapsulates two separate things: (1) Xholon Type, (2) Mechanism (Formalism).
    - implName
```
java.lang.String implName
```
      Name of the Java class that implements instances of this Xholon class.
    - app
```
IApplication app
```
      The instance of Application that contains the entire model.
    - decoration
```
IDecoration decoration
```
      Optional object that can contain decorations such as color, font, icon, toolTip.
    - prefixed
```
boolean prefixed
```
      Whether the XholonClass name must be prefixed. This is true if the XML that specified that class used a prefixed form.
    - defaultContent
```
java.lang.String defaultContent
```
      The default content of instances of this Xholon class. It should be optional whether or not instances elect to use this.
    - prototype
```
JavaScriptObject prototype
```
      JavaScript prototype that might be created by createPrototype()
    - childSuperClass
```
java.lang.String childSuperClass
```
      The default type (superClass) of a node's child instances. This might be used by a container such as a XholonList to specify the types of nodes it contains. Whether or not child nodes are actually of that type, is optional. ex: <Reactions superClass="Transitions" childSuperClass="Reaction"/>
- Class org.primordion.xholon.base.XholonList extends Xholon implements Serializable
  
  serialVersionUID:
  
  3194016192067889323L
  - Serialized Fields
    - size
```
int size
```
      Number of elements in the list.
    - roleName
```
java.lang.String roleName
```
      Optional role name. Can be used to distinguish this XholonList from others in the same container.
- Class org.primordion.xholon.base.XholonMap extends Xholon implements Serializable
  
  serialVersionUID:
  
  -1200601818204244499L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.base.XholonNode extends Xholon implements Serializable
  
  serialVersionUID:
  
  -3621367798626117959L
  - Serialized Fields
    - action
```
java.lang.String action
```
      The Xholon edit action that should be taken.
    - nodezApp
```
java.lang.String nodezApp
```
      The Xholon application that this node is a part of.
    - idType
```
int idType
```
      The type of id used by the nodeId.
    - nodeId
```
java.lang.String nodeId
```
      A nodeId identifies a node, using one of the idType schemes. Ideally, the nodeId should uniquely identify exactly one node in the current Xholon tree. If the nodeId identifies more than one node, then only the first matching node will be used.
    - time
```
java.lang.String time
```
      The absolute date and time when the action was recorded.
    - timeStep
```
int timeStep
```
      The timeStep when the action should be taken.
    - contextNode
```
IXholon contextNode
```
    - content
```
java.lang.String content
```
      The content (XML text) of this XholonNode.
- Class org.primordion.xholon.base.XholonNull extends Xholon implements Serializable
  
  serialVersionUID:
  
  9129450801494384662L
- Class org.primordion.xholon.base.XholonTime extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  8877951293861782403L
- Class org.primordion.xholon.base.XholonWithPorts extends Xholon implements Serializable
  
  serialVersionUID:
  
  -556489515016015371L
  - Serialized Fields
    - port
```
IXholon[] port
```
- Class org.primordion.xholon.base.XPath extends AbstractXPath implements Serializable
  
  serialVersionUID:
  
  -8003054893484578246L
Package org.primordion.xholon.base.transferobject
- Class org.primordion.xholon.base.transferobject.MessageSenderReceiver extends Xholon implements Serializable
  
  serialVersionUID:
  
  2407300735816447019L
  - Serialized Fields
    - id
```
int id
```
      Identifier.
      If the id is < 0, then it identifies the type of node selector.
      
      If the id is >= 0, then the id is a Xholon id, and the node selector is the name of a XholonClass.
    - nodeSelector
```
java.lang.String nodeSelector
```
      A String that, in conjunction with the id, can be used to select a specific node in a Xholon model.
Package org.primordion.xholon.exception
- Class org.primordion.xholon.exception.XholonConfigurationException extends XholonException implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.primordion.xholon.exception.XholonException extends java.lang.Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package org.primordion.xholon.io
- Class org.primordion.xholon.io.About extends Xholon implements Serializable
- Class org.primordion.xholon.io.AbstractChartViewer extends Xholon implements Serializable
  - Serialized Fields
    - chartRoot
```
XholonWithPorts chartRoot
```
    - firstXYSeries
```
XholonWithPorts firstXYSeries
```
    - seriesCount
```
int seriesCount
```
    - nameConcatLevels
```
int nameConcatLevels
```
    - writeType
```
int writeType
```
    - setXRangeManually
```
boolean setXRangeManually
```
    - minX
```
double minX
```
    - maxX
```
double maxX
```
    - setYRangeManually
```
boolean setYRangeManually
```
    - minY
```
double minY
```
    - maxY
```
double maxY
```
    - yFormat
```
java.lang.String yFormat
```
    - writeToTab
```
boolean writeToTab
```
- Class org.primordion.xholon.io.AbstractHistogramViewer extends Xholon implements Serializable
  - Serialized Fields
    - histRootModel
```
IXholon histRootModel
```
    - histRootView
```
IXholon histRootView
```
    - xhClass
```
IXholonClass xhClass
```
    - numBins
```
int numBins
```
    - nameConcatLevels
```
int nameConcatLevels
```
    - writeType
```
int writeType
```
    - setXRangeManually
```
boolean setXRangeManually
```
    - minX
```
double minX
```
    - maxX
```
double maxX
```
    - setYRangeManually
```
boolean setYRangeManually
```
    - minY
```
double minY
```
    - maxY
```
double maxY
```
    - yFormat
```
java.lang.String yFormat
```
- Class org.primordion.xholon.io.ChartViewerC3 extends AbstractChartViewer implements Serializable
  - Serialized Fields
    - typeOfData
```
java.lang.String typeOfData
```
    - maxTimeSteps
```
int maxTimeSteps
```
    - sbd
```
java.lang.StringBuilder sbd
```
    - sbXYSeries
```
java.lang.StringBuilder[] sbXYSeries
```
    - sbTimeStep
```
java.lang.StringBuilder sbTimeStep
```
    - shouldIncludeTimeSteps
```
boolean shouldIncludeTimeSteps
```
    - dateTime
```
long dateTime
```
    - statsSeries
```
java.lang.String statsSeries
```
    - dataDelimiter
```
java.lang.String dataDelimiter
```
    - elementId
```
java.lang.String elementId
```
      ID of the HTML element where the chart will be rendered.
    - xLabel
```
java.lang.String xLabel
```
    - yLabel
```
java.lang.String yLabel
```
    - title
```
java.lang.String title
```
    - yTicksSpacing
```
int yTicksSpacing
```
    - showLegend
```
boolean showLegend
```
    - legend
```
java.lang.String legend
```
    - width
```
int width
```
    - height
```
int height
```
    - seriesNameNonNode
```
java.lang.String[] seriesNameNonNode
```
    - seriesColor
```
java.lang.String[] seriesColor
```
      Colors that can be used to draw lines in a line chart.
- Class org.primordion.xholon.io.ChartViewerGnuplot extends AbstractChartViewer implements Serializable
  - Serialized Fields
    - pathName
```
java.lang.String pathName
```
    - typeOfData
```
java.lang.String typeOfData
```
    - maxTimeSteps
```
int maxTimeSteps
```
    - sbd
```
java.lang.StringBuilder sbd
```
    - dateTime
```
long dateTime
```
    - statsSeries
```
java.lang.String statsSeries
```
    - dataDelimiter
```
java.lang.String dataDelimiter
```
    - graphicFormat
```
java.lang.String graphicFormat
```
    - dataFormat
```
java.lang.String dataFormat
```
    - scriptFormat
```
java.lang.String scriptFormat
```
    - textFormat
```
java.lang.String textFormat
```
    - xLabel
```
java.lang.String xLabel
```
    - yLabel
```
java.lang.String yLabel
```
    - title
```
java.lang.String title
```
    - gpTitle1
```
java.lang.String gpTitle1
```
    - gpTitle2
```
java.lang.String gpTitle2
```
    - gpTitle3
```
java.lang.String gpTitle3
```
    - commentString
```
java.lang.String commentString
```
    - yTicksSpacing
```
int yTicksSpacing
```
    - useNotes
```
boolean useNotes
```
    - showLegend
```
boolean showLegend
```
    - useScript
```
boolean useScript
```
    - seriesNameNonNode
```
java.lang.String[] seriesNameNonNode
```
    - outFileName
```
java.lang.String outFileName
```
    - outPathCsv
```
java.lang.String outPathCsv
```
    - outPathPlt
```
java.lang.String outPathPlt
```
    - useGnuplotJS
```
boolean useGnuplotJS
```
    - terminalWidth
```
int terminalWidth
```
    - terminalHeight
```
int terminalHeight
```
- Class org.primordion.xholon.io.ChartViewerGoogle2 extends AbstractChartViewer implements Serializable
  - Serialized Fields
    - typeOfData
```
java.lang.String typeOfData
```
    - maxTimeSteps
```
int maxTimeSteps
```
    - sbd
```
java.lang.StringBuilder sbd
```
    - dateTime
```
long dateTime
```
    - statsSeries
```
java.lang.String statsSeries
```
    - dataDelimiter
```
java.lang.String dataDelimiter
```
    - elementId
```
java.lang.String elementId
```
      ID of the HTML element where the chart will be rendered. Google API playground requires 'visualization'. Xholon applets such as Bestiary have used 'usercontent'.
    - xLabel
```
java.lang.String xLabel
```
    - yLabel
```
java.lang.String yLabel
```
    - title
```
java.lang.String title
```
    - yTicksSpacing
```
int yTicksSpacing
```
    - showLegend
```
boolean showLegend
```
    - legend
```
java.lang.String legend
```
    - width
```
int width
```
    - height
```
int height
```
    - seriesNameNonNode
```
java.lang.String[] seriesNameNonNode
```
    - seriesColor
```
java.lang.String[] seriesColor
```
      Colors that can be used to draw lines in a line chart.
    - sbRowData
```
java.lang.StringBuilder sbRowData
```
- Class org.primordion.xholon.io.ChartViewerNVD3 extends AbstractChartViewer implements Serializable
  - Serialized Fields
    - typeOfData
```
java.lang.String typeOfData
```
    - maxTimeSteps
```
int maxTimeSteps
```
    - sbd
```
java.lang.StringBuilder sbd
```
    - sbXYSeries
```
java.lang.StringBuilder[] sbXYSeries
```
    - dateTime
```
long dateTime
```
    - statsSeries
```
java.lang.String statsSeries
```
    - dataDelimiter
```
java.lang.String dataDelimiter
```
    - elementId
```
java.lang.String elementId
```
      ID of the HTML element where the chart will be rendered.
    - xLabel
```
java.lang.String xLabel
```
    - yLabel
```
java.lang.String yLabel
```
    - title
```
java.lang.String title
```
    - yTicksSpacing
```
int yTicksSpacing
```
    - showLegend
```
boolean showLegend
```
    - legend
```
java.lang.String legend
```
    - width
```
int width
```
    - height
```
int height
```
    - seriesNameNonNode
```
java.lang.String[] seriesNameNonNode
```
    - seriesColor
```
java.lang.String[] seriesColor
```
      Colors that can be used to draw lines in a line chart. Color scheme from: colorbrewer2.org
    - seriesColorIndex
```
int seriesColorIndex
```
- Class org.primordion.xholon.io.GridPanel extends Xholon implements Serializable
  
  serialVersionUID:
  
  8201866815042917543L
  - Serialized Fields
    - gridOwner
```
IXholon gridOwner
```
    - app
```
IApplication app
```
    - backgroundImage
```
java.lang.String backgroundImage
```
    - upperLeft
```
AbstractGrid upperLeft
```
    - cellSize
```
int cellSize
```
    - nRows
```
int nRows
```
    - nCols
```
int nCols
```
    - neighType
```
int neighType
```
    - useShapes
```
boolean useShapes
```
      Whether or not to use shapes for drawing.
    - xholonHelperService
```
IXholon xholonHelperService
```
      A service that provides additional methods for IXholon instances.
    - nodeSelectionService
```
IXholon nodeSelectionService
```
      A service that will keep track of which IXholon node(s) are currently selected, specifically which GridPanel. This will allow other services or xholons to act on those nodes.
    - canvas
```
Canvas canvas
```
      A GWT Canvas object.
    - context
```
Context2d context
```
      A GWT rendering context.
    - currentX
```
int currentX
```
      Current X coordinate as continuously calculated by getSelectedGridCell(MouseEvent me) . This is needed by getSelectedGridCell(ContextMenuEvent cme) .
    - currentY
```
int currentY
```
      Current Y coordinate as continuously calculated by getSelectedGridCell(MouseEvent me) . This is needed by getSelectedGridCell(ContextMenuEvent cme) .
    - xCoorHex
```
int[] xCoorHex
```
      hexagon x coordinates for use with drawHexGrid()
    - yCoorHex
```
int[] yCoorHex
```
      hexagon y coordinates for use with drawHexGrid()
    - contextTabIndex
```
int contextTabIndex
```
      The numeric index of an optional context-specific tab in the HTML page. This tab is shared amongst all grid cells, only one of which is currently the context node. A value of -1 means there is no tab.
    - xholonConsole
```
IXholonConsole xholonConsole
```
      The IXholonConsole associated with the optional context-specific tab in the HTML page.
- Class org.primordion.xholon.io.GridPanelGeneric extends GridPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - colorMap
```
java.util.Map<K,V> colorMap
```
      Maps a XholonClass id to a Color. There's a bug? that makes it impossible to look-up the CssColor directly, so this has to be a String-to-String mapping.
    - seriesColor
```
java.lang.String[] seriesColor
```
      RGB colors that can be applied to nodes in the grid.
    - nextColorIndex
```
int nextColorIndex
```
    - gridCellColor
```
CssColor gridCellColor
```
      Color of a grid cell.
- Class org.primordion.xholon.io.HistogramViewerD3 extends AbstractHistogramViewer implements Serializable
  - Serialized Fields
    - pathName
```
java.lang.String pathName
```
    - typeOfData
```
java.lang.String typeOfData
```
    - writeType
```
int writeType
```
    - sbd
```
java.lang.StringBuilder sbd
```
    - dateTime
```
long dateTime
```
    - statsSeries
```
java.lang.String statsSeries
```
    - dataDelimiter
```
java.lang.String dataDelimiter
```
    - graphicFormat
```
java.lang.String graphicFormat
```
    - dataFormat
```
java.lang.String dataFormat
```
    - scriptFormat
```
java.lang.String scriptFormat
```
    - textFormat
```
java.lang.String textFormat
```
    - xLabel
```
java.lang.String xLabel
```
    - yLabel
```
java.lang.String yLabel
```
    - title
```
java.lang.String title
```
    - gpTitle1
```
java.lang.String gpTitle1
```
    - gpTitle2
```
java.lang.String gpTitle2
```
    - gpTitle3
```
java.lang.String gpTitle3
```
    - commentString
```
java.lang.String commentString
```
    - yTicksSpacing
```
int yTicksSpacing
```
    - useNotes
```
boolean useNotes
```
    - showLegend
```
boolean showLegend
```
- Class org.primordion.xholon.io.HistogramViewerGnuplot extends AbstractHistogramViewer implements Serializable
  - Serialized Fields
    - pathName
```
java.lang.String pathName
```
    - typeOfData
```
java.lang.String typeOfData
```
    - writeType
```
int writeType
```
    - sbd
```
java.lang.StringBuilder sbd
```
    - dateTime
```
long dateTime
```
    - statsSeries
```
java.lang.String statsSeries
```
    - dataDelimiter
```
java.lang.String dataDelimiter
```
    - graphicFormat
```
java.lang.String graphicFormat
```
    - dataFormat
```
java.lang.String dataFormat
```
    - scriptFormat
```
java.lang.String scriptFormat
```
    - textFormat
```
java.lang.String textFormat
```
    - xLabel
```
java.lang.String xLabel
```
    - yLabel
```
java.lang.String yLabel
```
    - title
```
java.lang.String title
```
    - gpTitle1
```
java.lang.String gpTitle1
```
    - gpTitle2
```
java.lang.String gpTitle2
```
    - gpTitle3
```
java.lang.String gpTitle3
```
    - commentString
```
java.lang.String commentString
```
    - yTicksSpacing
```
int yTicksSpacing
```
    - useNotes
```
boolean useNotes
```
    - showLegend
```
boolean showLegend
```
- Class org.primordion.xholon.io.HistogramViewerGoogle2 extends AbstractHistogramViewer implements Serializable
  - Serialized Fields
    - sbd
```
java.lang.StringBuilder sbd
```
    - elementId
```
java.lang.String elementId
```
      ID of the HTML element where the chart will be rendered. Google API playground requires 'visualization'.
    - width
```
int width
```
    - height
```
int height
```
- Class org.primordion.xholon.io.Snapshot extends Xholon implements Serializable
  - Serialized Fields
    - writeToTab
```
boolean writeToTab
```
- Class org.primordion.xholon.io.SnapshotXML extends Snapshot implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
- Class org.primordion.xholon.io.SnapshotYAML extends Snapshot implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
- Class org.primordion.xholon.io.TreeViewerText extends Xholon implements Serializable
  - Serialized Fields
    - numRowsVisited
```
int numRowsVisited
```
      The actual number of levels (rows) visited.
    - numColsVisited
```
int numColsVisited
```
      The actual number of nodes (columns) visited.
    - sb
```
java.lang.StringBuilder sb
```
- Class org.primordion.xholon.io.Xholon2Svg extends Xholon implements Serializable
  - Serialized Fields
    - xPathLocal
```
IXPath xPathLocal
```
      A local singleton instance of XPath.
    - svgFileName
```
java.lang.String svgFileName
```
      The name of the file to output.
    - modelName
```
java.lang.String modelName
```
      The name of the Xholon model.
    - root
```
IXholon root
```
      The root node in the generated GUI.
    - svgSb
```
java.lang.StringBuilder svgSb
```
      The instance of StringBuilder that builds a String that can be written to svgFileName or other target.
    - svgPathName
```
java.lang.String svgPathName
```
      The path where the guiFileName is located.
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
      The number of milliseconds since Jan 1, 1970. Same value as timeNow.
    - svgId
```
java.lang.String svgId
```
      ID of the root svg element.
    - reffedRoot
```
XholonSortedNode reffedRoot
```
      Root node in a tree of counts of how many times each IXholon is referenced by others. This is used to construct the counted number of conjugated/end ports.
    - svgStartPort
```
java.util.List<E> svgStartPort
```
      A collection of all non-conjugated/start ports. This is used to generate SVG connectors. ex: rtwo_12.port[1],19.0,34.0,cO2_5 .conjport[0] ex: hello_1.port[0],17.0,34.0,world_2 .conjport[0]
    - svgEndPort
```
java.util.Map<K,V> svgEndPort
```
      A collection of all conjugated/end ports. This is used to generate SVG connectors. ex: cO2_5.conjport[0]=23.0,44.0
    - rootInitialized
```
boolean rootInitialized
```
      Whether or not reffedRoot has been initialized.
    - svgClientOption
```
java.lang.String svgClientOption
```
      SvgClient is a separate class that can display the generated SVG. Possible options: "null", "help", "run", or "copy".
    - writeValType
```
java.lang.String writeValType
```
      What data type to write for values maintained by passive objects, if any. ex: "double" "int" etc.
    - nextSvgId
```
int nextSvgId
```
      Output all nodes with an ID, starting sequentially with this value.
    - indent
```
java.lang.String indent
```
      Use for pretty-printing the output.
- Class org.primordion.xholon.io.XholonWorkbook extends Xholon implements Serializable
  - Serialized Fields
    - app
```
IApplication app
```
    - xholonHelperService
```
IXholon xholonHelperService
```
    - contextNode
```
IXholon contextNode
```
      To prevent the insertion of unreasonably large workbooks. 100 * bufferCapacity chars
    - paramsStr
```
java.lang.String paramsStr
```
    - paramStr
```
java.lang.String paramStr
```
    - shouldInsertSvgClient
```
boolean shouldInsertSvgClient
```
    - shouldInsertBehaviors
```
boolean shouldInsertBehaviors
```
    - viewBehaviorList
```
java.util.List<E> viewBehaviorList
```
      List of view behaviors that need to be passed to SvgClient.
- Class org.primordion.xholon.io.XholonWorkbookBundle extends Xholon implements Serializable
  - Serialized Fields
    - workbookContents
```
java.lang.String workbookContents
```
      The contents of a XholonWorkbook, as an XML string.
    - resourceMap
```
java.util.Map<K,V> resourceMap
```
Package org.primordion.xholon.io.cherrytree
- Class org.primordion.xholon.io.cherrytree.CherryTreeStrWriter extends XmlStrWriter implements Serializable
  - Serialized Fields
    - richText
```
java.lang.String richText
```
      Accumulated text for the current node.
- Class org.primordion.xholon.io.cherrytree.CherryTreeWriterFactory extends Xholon implements Serializable
  - Serialized Fields
    - xholonStaxWriter
```
java.lang.String xholonStaxWriter
```
      Name of Xholon Stax writer class.
Package org.primordion.xholon.io.console
- Class org.primordion.xholon.io.console.XholonConsole extends XholonWithPorts implements Serializable
  - Serialized Fields
    - special
```
MenuItem special
```
    - fileopen
```
MenuItem fileopen
```
    - filesave
```
MenuItem filesave
```
    - filesaveas
```
MenuItem filesaveas
```
    - closeguiMI
```
MenuItem closeguiMI
```
    - clearcommand
```
MenuItem clearcommand
```
    - increasefontsize
```
MenuItem increasefontsize
```
    - decreasefontsize
```
MenuItem decreasefontsize
```
    - modedefault
```
MenuItem modedefault
```
    - modexpath
```
MenuItem modexpath
```
    - modejs
```
MenuItem modejs
```
    - modeattr
```
MenuItem modeattr
```
    - help
```
MenuItem help
```
    - xpath
```
MenuItem xpath
```
    - jsscript
```
MenuItem jsscript
```
    - behaviorScript
```
MenuItem behaviorScript
```
    - behaviorScriptProto
```
MenuItem behaviorScriptProto
```
    - behaviorScriptInstance
```
MenuItem behaviorScriptInstance
```
    - submit
```
MenuItem submit
```
    - commandPane
```
HTML commandPane
```
    - app
```
IApplication app
```
      The Application that the context node is running in.
    - context
```
IXholon context
```
      The Xholon node that the XholonConsole node is associated with.
    - roleName
```
java.lang.String roleName
```
      The name of the context node.
    - xholonHelperService
```
XholonHelperService xholonHelperService
```
      A service that provides access to the XholonConsole.
    - nodeSelectionService
```
IXholon nodeSelectionService
```
      A service that will keep track of which IXholon node(s) are currently selected. This will allow other services or xholons to act on those nodes.
    - modes
```
java.lang.String[] modes
```
      Possible values for mode.
    - modeLabels
```
java.lang.String[] modeLabels
```
      User friendly labels for the different modes.
    - mode
```
java.lang.String mode
```
      The language that the console is currently able to parse and respond to. The mode can be set by selecting from a menu, or through a command that consists of just the mode String (ex: "xpath:"). ex: ""default "xpath:" "js:" "attr:"
    - widget
```
Widget widget
```
      The HTML widget that implements the XholonConsole.
Package org.primordion.xholon.io.csv
- Class org.primordion.xholon.io.csv.CsvStrWriter extends XmlWriter implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
    - sbHeaderElem
```
java.lang.StringBuilder sbHeaderElem
```
    - sbHeaderAttr
```
java.lang.StringBuilder sbHeaderAttr
```
    - sbData
```
java.lang.StringBuilder sbData
```
    - fieldSeparator
```
char fieldSeparator
```
      The character that separates fields. Typically this is a comma or tab.
    - textDelimiter
```
char textDelimiter
```
      The character that delimits text in a field. The textDelimiter is only used when instances of the fieldSeparator exist inside the text. ex: abc,def,"mn,op",rst,uvw
    - metaData_data
```
java.lang.String metaData_data
```
      Optionally meta data that will be written as the first column.
    - metaData_elem
```
java.lang.String metaData_elem
```
    - metaData_attr
```
java.lang.String metaData_attr
```
    - shouldWriteHeaderElem
```
boolean shouldWriteHeaderElem
```
      Whether or not to write a header row with elements.
    - shouldWriteHeaderAttr
```
boolean shouldWriteHeaderAttr
```
      Whether or not to write a header row with attributes.
    - currentElemName
```
java.lang.String currentElemName
```
      The name of the current element.
    - hasNewElemName
```
boolean hasNewElemName
```
      An element may have more than one attribute.
    - shouldWriteText
```
boolean shouldWriteText
```
      Whether or not to write text (= XML text). TODO confirm that this is working OK
- Class org.primordion.xholon.io.csv.CsvWriterFactory extends Xholon implements Serializable
Package org.primordion.xholon.io.htmlform
- Class org.primordion.xholon.io.htmlform.HtmlFormStrWriter extends XmlWriter implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
    - controlId
```
int controlId
```
      An ID that can be incremented for each label+input, or other control.
- Class org.primordion.xholon.io.htmlform.HtmlFormWriterFactory extends Xholon implements Serializable
Package org.primordion.xholon.io.json
- Class org.primordion.xholon.io.json.JsonStrWriter extends XmlWriter implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
    - suppressAtAttributes
```
boolean suppressAtAttributes
```
      By default, Jettison prepends a @ to each attribute, I assume to distinguish attributes from elements.
- Class org.primordion.xholon.io.json.JsonWriterFactory extends Xholon implements Serializable
Package org.primordion.xholon.io.vrml
- Class org.primordion.xholon.io.vrml.AbstractVrmlWriter extends Xholon implements Serializable
  - Serialized Fields
    - v
```
VrmlBuffer v
```
    - rot
```
Rotations rot
```
    - random
```
java.util.Random random
```
    - root
```
IXholon root
```
Package org.primordion.xholon.io.xml
- Class org.primordion.xholon.io.xml.AbstractXml2Xholon_gwt extends Xholon implements Serializable
  - Serialized Fields
    - factory
```
ITreeNodeFactory factory
```
      Factory that allocates memory for nodes.
    - inherHier
```
IInheritanceHierarchy inherHier
```
      The inheritance hierarchy that corresponds to this containment hierarchy.
    - app
```
IApplication app
```
      The application node that will own the new xholons.
    - xincludePath
```
java.lang.String xincludePath
```
      The location of xincluded files (required in subclasses in this implementation).
    - xincludePrefix
```
java.lang.String xincludePrefix
```
      The prefix for XInclude. TODO get this from the XML stream. ex: xi:include
    - constructorArgs
```
java.util.Set<E> constructorArgs
```
      Set of constructor-arg nodes for later processing. It's a set to ensure that duplicates are discarded.
- Class org.primordion.xholon.io.xml.Xholon2Xml extends Xholon implements Serializable
  - Serialized Fields
    - xhAttrStyle
```
int xhAttrStyle
```
      How to transform Xholon/Java attributes.
    - xhAttrReturnAll
```
boolean xhAttrReturnAll
```
      Whether to return only the attributes of the immediate concrete class (false), or attributes from all concrete classes in the inheritance hierarchy that extend from Xholon or XholonWithPorts (true).
    - writeStartDocument
```
boolean writeStartDocument
```
      Should the XML Declaration be written at the start of a new XML document.
    - writeXholonId
```
boolean writeXholonId
```
      Should the Xholon ID be written out as an XML attribute for each node.
    - writeXholonRoleName
```
boolean writeXholonRoleName
```
      Should the Xholon roleName be written out as an XML attribute for each node.
    - nameTemplate
```
java.lang.String nameTemplate
```
      Template to use when writing out node names.
    - writePorts
```
boolean writePorts
```
      Should ports be written out as XML attributes for each node that has ports.
    - writeAnnotations
```
boolean writeAnnotations
```
      Should annotations be written when available for nodes.
    - annService
```
IXholon annService
```
      Annotation service.
    - xmlRoot
```
IXholon xmlRoot
```
      The root of the Xholon subtree being transformed into XML
    - writeStandardAttributes
```
boolean writeStandardAttributes
```
      Should standard attributes be written out for each node.
    - writeAttributes
```
boolean writeAttributes
```
      Should attributes be written out for each node.
- Class org.primordion.xholon.io.xml.Xml2Mechanism extends AbstractXml2Xholon_gwt implements Serializable
  - Serialized Fields
    - implName
```
java.lang.String implName
```
      Name of the Java class that implements mechanism Xholons.
- Class org.primordion.xholon.io.xml.Xml2Xholon extends AbstractXml2Xholon_gwt implements Serializable
- Class org.primordion.xholon.io.xml.Xml2XholonClass extends AbstractXml2Xholon_gwt implements Serializable
  - Serialized Fields
    - lastIdUsed
```
int lastIdUsed
```
      The last id assigned to a node. This is used to pass this information from child nodes back to a parent.
- Class org.primordion.xholon.io.xml.XmlGwtDomReader extends XmlReader implements Serializable
  - Serialized Fields
    - in
```
java.lang.Object in
```
      The XML string.
    - document
```
Document document
```
      A Document Object Model (DOM) document.
    - currentNode
```
Node currentNode
```
      The current node in the DOM. The node currently pointed to by the DOM cursor.
    - currentNodeAttributes
```
NamedNodeMap currentNodeAttributes
```
      The attributes of the currentNode.
    - eventType
```
int eventType
```
      The IXholonReader (Stax) event currently associated with the currentNode.
    - state
```
int state
```
      Whether to return START_TAG or END_TAG .
- Class org.primordion.xholon.io.xml.XmlReader extends Xholon implements Serializable
- Class org.primordion.xholon.io.xml.XmlReaderFactory_gwt extends Xholon implements Serializable
- Class org.primordion.xholon.io.xml.XmlStrWriter extends XmlWriter implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
    - shouldWriteGt
```
boolean shouldWriteGt
```
      Whether or not to write a ">" Greater-Than (Gt) symbol before writing a startElement, endElement, or text.
- Class org.primordion.xholon.io.xml.XmlWriter extends Xholon implements Serializable
  - Serialized Fields
    - shouldWriteVal
```
boolean shouldWriteVal
```
      Whether or not to write an attribute with the name "Val".
    - shouldWriteAllPorts
```
boolean shouldWriteAllPorts
```
      Whether or not to write an attribute with the name "AllPorts".
- Class org.primordion.xholon.io.xml.XmlWriterFactory extends Xholon implements Serializable
Package org.primordion.xholon.io.yaml
- Class org.primordion.xholon.io.yaml.YamlStrWriter extends XmlWriter implements Serializable
  - Serialized Fields
    - sb
```
java.lang.StringBuilder sb
```
    - level
```
int level
```
      The indent level.
    - indentCharacters
```
java.lang.String indentCharacters
```
      The character(s) to use for a single level of indentation. This must be some sequence of one or more spaces.
- Class org.primordion.xholon.io.yaml.YamlWriterFactory extends Xholon implements Serializable
Package org.primordion.xholon.mech.mathml
- Class org.primordion.xholon.mech.mathml.Math extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.MathML extends Xholon implements Serializable
Package org.primordion.xholon.mech.mathml.content
- Class org.primordion.xholon.mech.mathml.content.Annotation extends MathML implements Serializable
  - Serialized Fields
    - body
```
java.lang.String body
```
    - roleName
```
java.lang.String roleName
```
      encoding
- Class org.primordion.xholon.mech.mathml.content.Annotationxml extends MathML implements Serializable
  - Serialized Fields
    - val
```
java.lang.String val
```
    - encoding
```
java.lang.String encoding
```
- Class org.primordion.xholon.mech.mathml.content.Apply extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Ci extends XholonWithPorts implements Serializable
  - Serialized Fields
    - bvar
```
IXholon bvar
```
      The Xholon node that contains the bound variable.
    - bvarAttr
```
java.lang.String bvarAttr
```
      The name of the bound variable in the bvar node.
- Class org.primordion.xholon.mech.mathml.content.Cn extends MathML implements Serializable
  - Serialized Fields
    - val
```
double val
```
      The value of this constant. This is MathML type "real".
- Class org.primordion.xholon.mech.mathml.content.Divide extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Eq extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Factorial extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.JavaMath extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Minus extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Plus extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Semantics extends MathML implements Serializable
- Class org.primordion.xholon.mech.mathml.content.Times extends MathML implements Serializable
Package org.primordion.xholon.mech.petrinet
- Class org.primordion.xholon.mech.petrinet.AnalysisPetriNet extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  2158160019420564922L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - tokensCutoff
```
double tokensCutoff
```
      The cutoff in number of tokens to decide if a place exists. If there are no instances of a place, then that place does not appear in the list returned. Normally, with a Xholon app, we want to see a place even if it's current token count is 0.0. So by default, this variable has a value of -1.0, which means use the place if it has a concentration greater than -1.0 . To exclude places that have a token count of 0.0, set this variable to 0.0 .
- Class org.primordion.xholon.mech.petrinet.Arc extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  -425469979211797030L
  - Serialized Fields
    - place
```
IXholon place
```
      A port reference to a single Petri net Place.
    - connector
```
java.lang.String connector
```
      The specification of the port reference to a single Petri net Place, formatted as an XPath string.
    - weight
```
java.lang.Object weight
```
      The minimum number of tokens that must be present in an input place, before the Transition that owns this Arc will fire. Or, the number of tkens that will be created in an output place, if the Transition fires.
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.mech.petrinet.InputArc extends Arc implements Serializable
  
  serialVersionUID:
  
  -7201188517143210326L
- Class org.primordion.xholon.mech.petrinet.OutputArc extends Arc implements Serializable
  
  serialVersionUID:
  
  5332168632504935872L
- Class org.primordion.xholon.mech.petrinet.PetriNet extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  7625420962194811618L
  - Serialized Fields
    - kineticsType
```
int kineticsType
```
      The type of kinetics used by instances of Transition in this Petri net, unless individual Transition nodes override it.
    - p
```
double p
```
      Probability that an enabled transition will fire. A real number between 0.0 and 1.0. 0.0 means the transition will never fire, even when enabled. 1.0 means the transition will always fire,when enabled.
    - k
```
double k
```
      Reaction rate; k
      k is the rate constant for a reaction (Feinberg)
      
      see Baez, Network Theory (Part 3)
      
      0 <= reactionRate < infinity
      
      how is this related to probability, count ???
      
      each Transition should have its own rate
      
      for Glycolysis model: 0.005 causes chaos 0.01 causes complete failure (NaN)
    - timeStepMultiplier
```
int timeStepMultiplier
```
      time step multiplier
      Each Petri net can have its own value.
    - dt
```
double dt
```
      delta t (an increment in time)
      This is dependent on and must be consistent with timeStepMultiplier.
    - chartInterval
```
int chartInterval
```
      how many time step intervals to chart
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.mech.petrinet.PetriNetEntity extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  7930646098334429811L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.mech.petrinet.Place extends Xholon implements Serializable
  
  serialVersionUID:
  
  4272596417608985819L
  - Serialized Fields
    - token
```
java.lang.Object token
```
      The number of tokens currently at this Place.
    - units
```
java.lang.String units
```
      The optional units that the tokens are measured in. If no units are specified, the units are assumed to be dimensionless or simple amounts. ex: m °C m/s
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.mech.petrinet.QueueTransitions extends Queue implements Serializable
  
  serialVersionUID:
  
  8218198061365304635L
  - Serialized Fields
    - transitionsRoot
```
IXholon transitionsRoot
```
      Root node of a subtree that contains the Transition nodes for this PetriNet.
    - connector
```
java.lang.String connector
```
      The specification of the port reference to a subtree (transitionsRoot) that contains Transition nodes, formatted as an XPath string.
    - shouldAct
```
boolean shouldAct
```
      Whether or not to do something (invoke act()) each time step.
    - shouldShuffle
```
boolean shouldShuffle
```
      Whether or not to shuffle each time step.
    - timeStepMultiplier
```
int timeStepMultiplier
```
      time step multiplier
      Each Petri net can have its own value.
      
      This is a convenience copy of the value in PetriNet.
- Class org.primordion.xholon.mech.petrinet.Transition extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  1001658950909890589L
  - Serialized Fields
    - kineticsType
```
int kineticsType
```
      The type of kinetics used by this instance of Transition.
    - roleName
```
java.lang.String roleName
```
    - inputArcs
```
IXholon inputArcs
```
    - outputArcs
```
IXholon outputArcs
```
    - p
```
double p
```
      Probability that an enabled transition will fire. A real number between 0.0 and 1.0. 0.0 means the transition will never fire, even when enabled. 1.0 means the transition will always fire,when enabled.
    - k
```
double k
```
      Reaction rate; k
      k is the rate constant for a reaction (Feinberg)
      
      see Baez, Network Theory (Part 3)
      
      0 <= reactionRate < infinity
      
      how is this related to probability, count ???
      
      each Transition should have its own rate
      
      for Glycolysis model: 0.005 causes chaos 0.01 causes complete failure (NaN)
    - vmax
```
double vmax
```
      Michaelis-Menten vmax
    - km
```
double km
```
      Michaelis-Menten km
    - count
```
double count
```
      Number of instances of this type of Transition. The count is related to the probability or reactionRate. For use by Grid.
    - dt
```
double dt
```
      delta t (an increment in time) This should only be set by the Petri net (QueueTransitions), so it's consistent with all transitions in the Petri net.
    - symbol
```
java.lang.String symbol
```
      An optional symbol that typically refers to the rate k.
Package org.primordion.xholon.mech.petrinet.cat
- Class org.primordion.xholon.mech.petrinet.cat.AnalysisCat extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  -1767787590187506822L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - tokensCutoff
```
double tokensCutoff
```
      The cutoff in number of tokens to decide if a place exists. If there are no instances of a place, then that place does not appear in the list returned. Normally, with a Xholon app, we want to see a place even if it's current token count is 0.0. So by default, this variable has a value of -1.0, which means use the place if it has a concentration greater than -1.0 . To exclude places that have a token count of 0.0, set this variable to 0.0 .
Package org.primordion.xholon.mech.petrinet.crn
- Class org.primordion.xholon.mech.petrinet.crn.AnalysisCRN extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  169343210872835268L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - useTex
```
boolean useTex
```
      Whether or not to output differential equations in TeX compatible format. Example:
      $$ \frac{d}{d t} e_11 = +(0.0039*d_10) -(0.0039*b_8*e_11) $$
    - useMathML
```
boolean useMathML
```
      Whether or not to output differential equations in presentation MathML format. Example:
    - useRateConstantSymbol
```
boolean useRateConstantSymbol
```
      Whether or not to output differential equation with rate constant symbols. For example, these may be Greek lowercase letters.
    - rateConstantSymbol
```
java.lang.String rateConstantSymbol
```
    - rateConstantSymbolTex
```
java.lang.String[] rateConstantSymbolTex
```
    - useFeinbergNotation
```
boolean useFeinbergNotation
```
      Whether or not to use notation similar to what Feinberg uses in his lectures/papers.
    - concentrationCutoff
```
double concentrationCutoff
```
      The cutoff in concentration to decide if a species exists. "the set of species which are actually present in the reactor" (Feinberg 2-4). If there are no instances of a species, then that species does not appear in the list returned. Normally, with a Xholon app, we want to see a species even if it's current concentration is 0.0. So by default, this variable has a value of -1.0, which means use the species if it has a concentration greater than -1.0 . To exclude species that have a concentration of 0.0, set this variable to 0.0 .
Package org.primordion.xholon.mech.petrinet.grid
- Class org.primordion.xholon.mech.petrinet.grid.FiringTransitionBehavior extends PneBehavior implements Serializable
  
  serialVersionUID:
  
  -6626008679068611618L
- Class org.primordion.xholon.mech.petrinet.grid.GridOwner extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  8432702866465277701L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - gridGenerator
```
java.lang.String gridGenerator
```
    - xholonHelperService
```
IXholon xholonHelperService
```
    - nodeSelectionService
```
IXholon nodeSelectionService
```
    - petriNet
```
IXholon petriNet
```
      The Petri net whose nodes serve as a template for the Grid.
    - rows
```
int rows
```
    - cols
```
int cols
```
    - gridCellColor
```
int gridCellColor
```
    - gridViewerParams
```
java.lang.String gridViewerParams
```
    - q
```
IQueue q
```
    - shouldPlacesMove
```
boolean shouldPlacesMove
```
      Should Place nodes in the Grid have a move behavior. If a Place in the PN has more than one input arc (or weight), then it must have a move behavior.
    - tokenFactor
```
double tokenFactor
```
      A value that's multiplied by the number of tokens in a Place, to determine how many nodes to create in the Grid. For example, this is used in the Cell model where each small molecule (places) has a token value of 100000.0.
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.mech.petrinet.grid.MovingBehavior extends PneBehavior implements Serializable
  
  serialVersionUID:
  
  -8099068326262469941L
  - Serialized Fields
    - moveSize
```
int moveSize
```
      The number of cells to move at one time.
    - moveSizeRandom
```
int moveSizeRandom
```
      The upper limit of a random number that will determine the actual +/- move size.
- Class org.primordion.xholon.mech.petrinet.grid.PneBehavior extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  8073061888438810806L
  - Serialized Fields
    - pne
```
IXholon pne
```
      The individual Petri net entity that has this behavior.
- Class org.primordion.xholon.mech.petrinet.grid.QueueNodesInGrid extends Queue implements Serializable
  
  serialVersionUID:
  
  8061749819534957674L
  - Serialized Fields
    - hasGarbage
```
boolean hasGarbage
```
Package org.primordion.xholon.mech.petrinet.memcomp
- Class org.primordion.xholon.mech.petrinet.memcomp.AnalysisMemComp extends XholonWithPorts implements Serializable
  
  serialVersionUID:
  
  -888071705129715503L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
    - tokensCutoff
```
double tokensCutoff
```
      The cutoff in number of tokens to decide if a place exists. If there are no instances of a place, then that place does not appear in the list returned. Normally, with a Xholon app, we want to see a place even if it's current token count is 0.0. So by default, this variable has a value of -1.0, which means use the place if it has a concentration greater than -1.0 . To exclude places that have a token count of 0.0, set this variable to 0.0 .
Package org.primordion.xholon.script
- Class org.primordion.xholon.script.EfParamsGenerator extends XholonScript implements Serializable
  - Serialized Fields
    - input
```
java.lang.String input
```
    - sbMakeEfParams
```
java.lang.StringBuilder sbMakeEfParams
```
    - sbGettersSetters
```
java.lang.StringBuilder sbGettersSetters
```
- Class org.primordion.xholon.script.InteractionsViewer extends XholonScript implements Serializable
  - Serialized Fields
    - useInteractions
```
boolean useInteractions
```
      Whether or not to capture interaction data in the app
    - interactionParams
```
java.lang.String interactionParams
```
      "OutputFormat,ShowStates,SocketHost,SocketPort"
    - mode
```
java.lang.String mode
```
      ifNotAlready (0-->1), replaceExisting (1-->1), new (n-->n+1), null
- Class org.primordion.xholon.script.Lojban extends XholonScript implements Serializable
  - Serialized Fields
    - input
```
java.lang.String input
```
    - nextSubscript
```
int nextSubscript
```
    - sb
```
java.lang.StringBuilder sb
```
    - blanks
```
java.lang.String blanks
```
    - text
```
java.lang.String text
```
- Class org.primordion.xholon.script.Plot extends XholonScript implements Serializable
  - Serialized Fields
    - dataPlotter
```
java.lang.String dataPlotter
```
      JFreeChart, gnuplot, jdbc, jpa, google, google2, c3, nvd3, none
    - dataPlotterParams
```
java.lang.String dataPlotterParams
```
      "Title,Time (timesteps),Y,./statistics/,stats,1,WRITE_AS_LONG"
    - mode
```
java.lang.String mode
```
      ifNotAlready (0-->1), replaceExisting (1-->1), new (n-->n+1), null
- Class org.primordion.xholon.script.port extends XholonScript implements Serializable
  - Serialized Fields
    - pi
```
PortInformation pi
```
      Information about the contents of this port node.
- Class org.primordion.xholon.script.Renumber extends XholonScript implements Serializable
  - Serialized Fields
    - nextId
```
int nextId
```
- Class org.primordion.xholon.script.Tabulator extends XholonScript implements Serializable
  - Serialized Fields
    - count
```
int count
```
- Class org.primordion.xholon.script.TreeIntegrityChecker extends XholonScript implements Serializable
  - Serialized Fields
    - problemCount
```
int problemCount
```
      The number of problems that were found.
- Class org.primordion.xholon.script.TreeTraversal extends XholonScript implements Serializable
  - Serialized Fields
    - order
```
java.lang.String order
```
- Class org.primordion.xholon.script.XholonModule extends XholonScript implements Serializable
- Class org.primordion.xholon.script.XholonScript extends Xholon implements Serializable
Package org.primordion.xholon.service
- Class org.primordion.xholon.service.AboutService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  3113112367784652789L
  - Serialized Fields
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
- Class org.primordion.xholon.service.AbstractXholonService extends Xholon implements Serializable
  
  serialVersionUID:
  
  2627137958616131550L
  - Serialized Fields
    - activated
```
boolean activated
```
      Whether or not this service has been activated. A service becomes activated once its getService() method is successfully called. Users or external classes can use this to decide whether the service is necessary in a given Xholon application.
- Class org.primordion.xholon.service.BlackboardService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  2507897516624143580L
- Class org.primordion.xholon.service.ChartViewerService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -3630623011455868059L
  - Serialized Fields
    - defaultImplName
```
java.lang.String defaultImplName
```
      Name of the class that implements the service. This is the default.
- Class org.primordion.xholon.service.DefaultXholonService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -2849056965626452959L
- Class org.primordion.xholon.service.DummyService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  789286574001917482L
- Class org.primordion.xholon.service.ExternalFormatService extends AbstractXholonService implements Serializable
  - Serialized Fields
    - actionNames
```
java.lang.String[] actionNames
```
      Cached action names.
    - subdirNames
```
java.lang.String[] subdirNames
```
      Possible subdirectories.
- Class org.primordion.xholon.service.GenericViewerService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  1393432514257308665L
- Class org.primordion.xholon.service.GistService extends AbstractXholonService implements Serializable
  - Serialized Fields
    - defaultImplName
```
java.lang.String defaultImplName
```
      Name of the class that implements the service. This is the default.
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
- Class org.primordion.xholon.service.MathSciEngService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -5882365715988210141L
  - Serialized Fields
    - defaultImplName
```
java.lang.String defaultImplName
```
      Name of the class that implements the service. This is the default.
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
- Class org.primordion.xholon.service.NodeSelectionService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  3612796200967356375L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.xholon.service.NoSqlService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  5549350436461778791L
  - Serialized Fields
    - defaultImplName
```
java.lang.String defaultImplName
```
      Name of the class that implements the service. This is the default. NoSqlService-Neo4jRestApi
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
- Class org.primordion.xholon.service.RecordPlaybackService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  2132381384108700426L
  - Serialized Fields
    - storage
```
Storage storage
```
    - shouldRecord
```
boolean shouldRecord
```
    - shouldPlayback
```
boolean shouldPlayback
```
    - toggleRecord
```
java.lang.String toggleRecord
```
    - showStorageNames
```
java.lang.String showStorageNames
```
    - showStorageValues
```
java.lang.String showStorageValues
```
    - showStatus
```
java.lang.String showStatus
```
    - clear
```
java.lang.String clear
```
    - actionList
```
java.lang.String[] actionList
```
- Class org.primordion.xholon.service.SearchEngineService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  6496373837634296248L
  - Serialized Fields
    - preferRoleName
```
boolean preferRoleName
```
      Whether or not the roleName should be taken as the search term.
    - listOf
```
java.lang.String listOf
```
      Wikipedia, and possibly other sites, have numerous "List_of" pages. If this value is null, then no attempt will be made to search for a "List_of" page. Otherwise, if the search term is plural, then the value of this variable will be inserted into the search term. ex: "Stars" becomes "List_of_stars" . The value can be localized to any other language.
- Class org.primordion.xholon.service.ServiceLocatorService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -8440302184848646489L
  - Serialized Fields
    - sep
```
java.lang.String sep
```
      Activation Statuses field seperator.
    - actionList
```
java.lang.String[] actionList
```
- Class org.primordion.xholon.service.SvgViewService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -677498888890519246L
  - Serialized Fields
    - defaultImplName
```
java.lang.String defaultImplName
```
      Name of the class that implements the service. This is the default.
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
- Class org.primordion.xholon.service.TimelineService extends AbstractXholonService implements Serializable
  - Serialized Fields
    - defaultImplName
```
java.lang.String defaultImplName
```
      Name of the class that implements the service. This is the default.
- Class org.primordion.xholon.service.TreeProcessorService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -4896114332825594411L
  - Serialized Fields
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.service.WiringService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  3891233638793276409L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.xholon.service.XholonCreationService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  -2704777815998360539L
  - Serialized Fields
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
- Class org.primordion.xholon.service.XholonDirectoryService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  664636371334470681L
  - Serialized Fields
    - actions
```
java.lang.String[] actions
```
      action list
- Class org.primordion.xholon.service.XholonHelperService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  2749468636212036654L
  - Serialized Fields
    - cutCopyPasteImplName
```
java.lang.String cutCopyPasteImplName
```
      Name of the Java class that implements ICutCopyPaste.
- Class org.primordion.xholon.service.XPathService extends AbstractXholonService implements Serializable
  
  serialVersionUID:
  
  4992546629491790961L
  - Serialized Fields
    - implName
```
java.lang.String implName
```
      Name of the class that implements the service.
    - actions
```
java.lang.String[] actions
```
      action list
Package org.primordion.xholon.service.creation
- Class org.primordion.xholon.service.creation.TreeNodeFactoryNew extends Xholon implements Serializable
  - Serialized Fields
    - xholonSubclass
```
java.lang.Class<T> xholonSubclass
```
    - xholonClassSubclass
```
java.lang.Class<T> xholonClassSubclass
```
Package org.primordion.xholon.service.gist
- Class org.primordion.xholon.service.gist.Gist extends Xholon implements Serializable
Package org.primordion.xholon.service.mathscieng
- Class org.primordion.xholon.service.mathscieng.JScience extends Xholon implements Serializable
- Class org.primordion.xholon.service.mathscieng.Quantity extends Xholon implements Serializable
  - Serialized Fields
    - instance
```
java.lang.Object instance
```
      An instance of QuantityScalar or QuantityVector.
    - roleName
```
java.lang.String roleName
```
- Class org.primordion.xholon.service.mathscieng.QuantityScalar extends Xholon implements Serializable
  - Serialized Fields
    - amount
```
Amount amount
```
      The amount encapsulated by this instance of Quantity.
    - roleName
```
java.lang.String roleName
```
      TODO Unable to set the roleName because of the use of QuantityFactory which calls xmlReader.next()
Package org.primordion.xholon.service.nosql
- Class org.primordion.xholon.service.nosql.Neo4jRestApi extends Xholon implements Serializable
  - Serialized Fields
    - contextNode
```
IXholon contextNode
```
    - actions
```
java.lang.String[] actions
```
      Action list.
Package org.primordion.xholon.service.processor
- Class org.primordion.xholon.service.processor.AbstractTreeProcessor extends Xholon implements Serializable
- Class org.primordion.xholon.service.processor.Fuddifier extends AbstractTreeProcessor implements Serializable
Package org.primordion.xholon.service.svg
- Class org.primordion.xholon.service.svg.SvgAttribute extends Xholon implements Serializable
  - Serialized Fields
    - svgId
```
java.lang.String svgId
```
    - attr
```
java.lang.String attr
```
    - newValue
```
java.lang.String newValue
```
    - svgView
```
IXholon svgView
```
- Class org.primordion.xholon.service.svg.SvgClient extends XholonWithPorts implements Serializable
  - Serialized Fields
    - service
```
IXholon service
```
      The SVG service.
    - serviceState
```
int serviceState
```
      The current state of the SVG service. The SVG diagram may be loaded asynchronously, and nothing can be done with it until it has finished loading.
    - setup
```
java.lang.String setup
```
      SVG setup parameters.
    - svgUri
```
java.lang.String svgUri
```
      The SVG URI may be specified separately. This is used to specify a data URI.
    - svgAttributesUri
```
java.lang.String svgAttributesUri
```
      An optional attributes XML URI. ex:
      "/org/primordion/user/app/Risk/SvgAttributes.xml"
    - makeText
```
java.util.List<E> makeText
```
      Initial text to add to the SVG image when it's loaded.
    - viewBehavior
```
java.util.List<E> viewBehavior
```
      A list of zero or more XML + JavaScript behaviors that should be added to the SVG service.
    - paused
```
boolean paused
```
      Whether or not the act() method is paused or active.
- Class org.primordion.xholon.service.svg.SvgLabel extends Xholon implements Serializable
  - Serialized Fields
    - svgId
```
java.lang.String svgId
```
    - svgLabel
```
java.lang.String svgLabel
```
    - energyBudgetView
```
IXholon energyBudgetView
```
- Class org.primordion.xholon.service.svg.SvgViewable extends Xholon implements Serializable
  - Serialized Fields
    - xhcName
```
java.lang.String xhcName
```
    - xhNode
```
IXholon xhNode
```
    - svgId
```
java.lang.String svgId
```
    - svgNode
```
Element svgNode
```
    - format
```
java.lang.String format
```
- Class org.primordion.xholon.service.svg.SvgViewBrowser extends Xholon implements Serializable
  - Serialized Fields
    - viewablesRoot
```
IXholon viewablesRoot
```
      XPath to the root viewables node.
    - viewablesUri
```
java.lang.String viewablesUri
```
      Model viewables URI. Correspondence between nodes in the model (the viewables), and nodes in the SVG view (.xml) (optional)
    - diagram
```
JavaScriptObject diagram
```
      The SVG image.
    - isClickable
```
boolean isClickable
```
      Whether or not the SVG image has clickable nodes. If it has clickable nodes, then the JTextField will be displayed.
    - frameWidthInc
```
int frameWidthInc
```
      The width of the Swing JFrame needs to be large enough to contain the SVG diagram, and the border of the JFrame.
    - frameHeightInc
```
int frameHeightInc
```
      The height of the Swing JFrame needs to be large enough to contain the SVG diagram, and the border of the JFrame.
    - backgroundColor
```
int backgroundColor
```
      The background color of the Swing JPanel. This is useful when the SVG image has a transparent background.
    - nodeSelectionService
```
IXholon nodeSelectionService
```
      It's not clear yet whether this will be useful or not.
    - svgUri
```
java.lang.String svgUri
```
      A local or remote SVG image. ex:
      "/org/primordion/user/app/climatechange/model04/Sun_climate_system_alternative_(German)_2008.svg"
      
      "file:///home/ken/Documents/ClimateChange/images/Sun_climate_system_alternative_(German)_2008.svg"
      
      "http://upload.wikimedia.org/wikipedia/commons/d/d2/Sun_climate_system_alternative_(German)_2008.svg"
    - svgUriFallback
```
java.lang.String svgUriFallback
```
      An optional fallback local or remote SVG image.
    - modelName
```
java.lang.String modelName
```
      Used as the title of the JFrame that contains the SVG image.
    - i18nUri
```
java.lang.String i18nUri
```
      An optional internationalization XML URI.
    - svgAttributesUri
```
java.lang.String svgAttributesUri
```
      An optional attributes XML URI. ex:
      "/org/primordion/user/app/Risk/SvgAttributes.xml"
    - format
```
java.lang.String format
```
      The default String.format to use when writing text to the SVG image.
    - shouldInitNumericText
```
boolean shouldInitNumericText
```
      Should all numeric text be set to 0 at the start?
    - xholonHelperService
```
IXholon xholonHelperService
```
      A service that provides additional methods for IXholon instances.
    - idScheme
```
java.lang.String[] idScheme
```
      Each SVG tool creates id's for new SVG shapes using it's own naming scheme. For example, svg-edit id names all start with "svg", while Inkscape uses "rect", "text", "path". Rect Circle Ellipse Line Polygon Polyline Path Text Tspan
    - hasChanged
```
boolean hasChanged
```
      Indicates whether or not this object has changed.
    - client
```
IXholon client
```
      An instance of SvgClient, or other IXholon node.
    - actions
```
java.lang.String[] actions
```
      Action list.
Package org.primordion.xholon.service.timeline
- Class org.primordion.xholon.service.timeline.AbstractTimelineViewer extends Xholon implements Serializable
  - Serialized Fields
    - writeToTab
```
boolean writeToTab
```
- Class org.primordion.xholon.service.timeline.TimelineViewerChapJSON extends AbstractTimelineViewer implements Serializable
  - Serialized Fields
    - outFileName
```
java.lang.String outFileName
```
    - outPath
```
java.lang.String outPath
```
    - modelName
```
java.lang.String modelName
```
    - root
```
IXholon root
```
    - timeNow
```
java.util.Date timeNow
```
      Current date and time.
    - timeStamp
```
long timeStamp
```
    - width
```
java.lang.String width
```
    - height
```
java.lang.String height
```
    - editable
```
java.lang.String editable
```
    - style
```
java.lang.String style
```
    - dateFmt
```
DateTimeFormat dateFmt
```
    - viewElementId
```
java.lang.String viewElementId
```
      HTML element ID where Timeline will be displayed.
    - startSb
```
java.lang.StringBuilder startSb
```
      Start of the CHAP Timeline script.
    - dataSb
```
java.lang.StringBuilder dataSb
```
      The accumulating text for all CHAP Timeline JSON data.
    - optionsSb
```
java.lang.StringBuilder optionsSb
```
      CHAP Timeline options.
    - endSb
```
java.lang.StringBuilder endSb
```
      End of the CHAP Timeline script.
Package org.primordion.xholon.service.xholonhelper
- Class org.primordion.xholon.service.xholonhelper.CutCopyPaste extends Xholon implements Serializable

Serialized Form

Package org.client

Class org.client.JavaApp2Workbook extends Xholon implements Serializable

Serialized Fields

_xhnStr

_xhnResolved

ihStr

ihResolved

cdStr

cdResolved

cshStr

cshResolved

infoStr

infoResolved

svgStr

svgResolved

numResolvable

numResolved

app

mode

appName

winName

Class org.client.SystemMechSpecific extends Application implements Serializable

Package org.fr.lri.swingstates.debug

Class org.fr.lri.swingstates.debug.StateMachineEvent extends java.util.EventObject implements Serializable

Serialized Fields

previousState

currentState

transition

Package org.fr.lri.swingstates.events

Class org.fr.lri.swingstates.events.VirtualEvent extends java.util.EventObject implements Serializable

Serialized Fields

nameEvent

Package org.fr.lri.swingstates.sm

Class org.fr.lri.swingstates.sm.State extends XholonAnonymous implements Serializable

Serialized Fields

machine

name

transitions

Class org.fr.lri.swingstates.sm.StateMachine extends XholonAnonymous implements Serializable

Serialized Fields

currentState

initialState

stateInBuilt

inited

active

consumes

allStates

Class org.fr.lri.swingstates.sm.StateNotFoundException extends java.lang.Exception implements Serializable

Serialized Fields

stateName

Class org.fr.lri.swingstates.sm.Transition extends XholonAnonymous implements Serializable

Serialized Fields

triggeringEvent

outputState

inputState

outputStateName

Package org.fr.lri.swingstates.sm.transitions

Class org.fr.lri.swingstates.sm.transitions.Event extends Transition implements Serializable

Serialized Fields

classEvent

event

Package org.primordion.cellontro.app

Class org.primordion.cellontro.app.AppCell extends Application implements Serializable

Class org.primordion.cellontro.app.AppCellAutop extends Application implements Serializable

Class org.primordion.cellontro.app.AppLife extends Application implements Serializable

Serialized Fields

xhMonitored

Class org.primordion.cellontro.app.XhCell extends XholonWithPorts implements Serializable

Serialized Fields

state

roleName

pheneVal

Class org.primordion.cellontro.app.XhCellAutop extends XholonWithPorts implements Serializable

Serialized Fields

state

roleName

pheneVal

Class org.primordion.cellontro.app.XhLife extends XholonWithPorts implements Serializable

Serialized Fields