org.primordion.xholon.tutorials.rcs
Class XhRcs2

java.lang.Object
  org.primordion.xholon.base.Xholon
      org.primordion.xholon.base.XholonWithPorts
          org.primordion.xholon.tutorials.rcs.XhRcs2

All Implemented Interfaces:

CeRcs2, IXholon

public class XhRcs2

extends XholonWithPorts

implements CeRcs2

Regulated Catalyzing System - Glycogen Phosphorylase (GP) - Molecular Machine (MM). This version of the GP system uses the concept of a molecular machine. It is manually coded rather than generated from a UML MagicDraw model.

Since:

0.5 (Created on October 21, 2006)

Author:

Ken Webb

Field Summary

static int	AxpPort
static int	Product
static int	Regulation
java.lang.String	roleName
static int	Substrate

Fields inherited from class org.primordion.xholon.base.XholonWithPorts

port

Fields inherited from class org.primordion.xholon.base.Xholon

DEFAULT_LEVEL, interaction, interactionsEnabled

Fields inherited from interface org.primordion.xholon.tutorials.rcs.CeRcs2

AdenosineCE, AdpCE, AtpCE, AxpCE, EnzymeCE, Glucose_1_PhosphateCE, GlucoseCE, GlycogenCE, GlycogenPhosphorylaseACE, GlycogenPhosphorylaseBCE, GlycogenPhosphorylaseCE, GlycogenPhosphorylaseSystemCE, includeCE, PhosphorylaseKinaseCE, PhosphorylasePhosphataseCE, PhosphorylGroupCE, PolysaccharideCE, RcsEnzymeCE, SmallMoleculeCE, SolutionCE, XholonClassCE

Fields inherited from interface org.primordion.xholon.base.IXholon

DEFAULT_SIZE_MSG_Q, NINCLUDE_PSC, NINCLUDE_PSx, NINCLUDE_PxC, NINCLUDE_Pxx, NINCLUDE_xSC, NINCLUDE_xSx, NINCLUDE_xxC, NINCLUDE_xxx

Constructor Summary

XhRcs2()

Method Summary

void	act() Do some action during this time step.
java.lang.String	getRoleName() Get name of the role played by this Xholon within a specific context.
double	getVal() Get the value of a "double" maintained by this xholon instance.
void	initialize() Initialize the tree node.
void	initStatics() Initialize any static varibles that can't be statically initialized.
void	setRoleName(java.lang.String roleName) Set name of the role played by this Xholon within a specific context.
java.lang.String	toString()

Methods inherited from class org.primordion.xholon.base.XholonWithPorts

configure, getMaxPorts, getPort, isActiveObject, isBound, isContainer, isPassiveObject, postConfigure, setMaxPorts, setPorts, terminate

Methods inherited from class org.primordion.xholon.base.Xholon

appendChild, appendChild, appendChild, cleanup, configure, createStructure, decVal, decVal, depth, draw, getChildNodes, getFirstChild, getFirstSibling, getId, getLastChild, getLastSibling, getName, getNeighbors, getNextId, getNextSibling, getNthChild, getNthSibling, getNumChildren, getNumSiblings, getParentNode, getPreviousSibling, getRootNode, getSiblings, getSizeMessageQ, getUid, getVal_boolean, getVal_byte, getVal_char, getVal_double, getVal_float, getVal_int, getVal_long, getVal_Object, getVal_short, getVal_String, getXhc, getXhcId, getXhcName, getXhType, handleNodeSelection, hasAncestor, hasChildNodes, hasChildOrSiblingNodes, hasNextSibling, hasParentNode, height, incVal, incVal, inOrderPrint, insertAfter, insertBefore, insertFirstChild, isExternal, isInternal, isLeaf, isRootNode, performActivity, performActivity, performBooleanActivity, performBooleanActivity, performDoubleActivity, performGuard, performVoidActivity, postAct, postOrderPrint, postReconfigure, preAct, preConfigure, preOrderPrint, preReconfigure, print, println, processMessageQ, processReceivedMessage, reconfigure, remove, removeChild, resetNextId, sendMessage, sendMessage, sendMessage, setAttributeVal, setFactory, setFirstChild, setId, setNextSibling, setParentChildLinks, setParentNode, setParentSiblingLinks, setSizeMessageQ, setUid, setVal, setVal, setVal, setVal, setVal, setVal, setVal, setVal, setVal, setVal, setVariableValue, setXhc, swapNode, treeSize, writeXml

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

Substrate

public static final int Substrate

See Also:

Constant Field Values

Product

public static final int Product

See Also:

Constant Field Values

Regulation

public static final int Regulation

See Also:

Constant Field Values

AxpPort

public static final int AxpPort

See Also:

Constant Field Values

roleName

public java.lang.String roleName

Constructor Detail

XhRcs2

public XhRcs2()

Method Detail

initialize

public void initialize()

Description copied from interface: IXholon

Initialize the tree node. Typically this is only used to re-initialize a node, such as when it is reused through the TreeNodeFactoryStatic.

Specified by:

initialize in interface IXholon

Overrides:

initialize in class XholonWithPorts

initStatics

public void initStatics()

Description copied from interface: IXholon

Initialize any static varibles that can't be statically initialized. ex: Rcs2 needs to initialize some static variables after XholonClass instances have been read in.

Specified by:

initStatics in interface IXholon

Overrides:

initStatics in class Xholon

setRoleName

public void setRoleName(java.lang.String roleName)

Description copied from interface: IXholon

Set name of the role played by this Xholon within a specific context.

Specified by:

setRoleName in interface IXholon

Overrides:

setRoleName in class Xholon

getRoleName

public java.lang.String getRoleName()

Description copied from interface: IXholon

Get name of the role played by this Xholon within a specific context.

Specified by:

getRoleName in interface IXholon

Overrides:

getRoleName in class Xholon

getVal

public double getVal()

Description copied from interface: IXholon

Get the value of a "double" maintained by this xholon instance. If a class that implements this interface does not maintain such a value, it should return 0.0 This method can be used in place of getVal_double()

Specified by:

getVal in interface IXholon

Overrides:

getVal in class Xholon

act

public void act()

Description copied from interface: IXholon

Do some action during this time step. Typically all nodes in the tree will do their pre-actions (optional), then all will do their actions, and then all will do their post-actions (optional).

Specified by:

act in interface IXholon

Overrides:

act in class Xholon

toString

public java.lang.String toString()

Overrides:

toString in class Xholon