Package mgui.neuro.components.compartments

Class CompartmentalDendrite

java.lang.Object

mgui.interfaces.AbstractInterfaceObject

mgui.models.networks.components.AbstractNetworkComponent

mgui.neuro.components.AbstractNeuroComponent

mgui.neuro.components.compartments.CompartmentalComponent

mgui.neuro.components.compartments.NeuronalCompartmentalComponent

mgui.neuro.components.compartments.CompartmentalDendrite

All Implemented Interfaces:

java.lang.Cloneable, java.lang.Comparable<DynamicModelComponent>, AttributeListener, AttributeObject, InterfaceObject, NamedObject, TreeObject, CleanableObject, DynamicModelComponent, TimeStepListener, Updateable, Dendrite, NeuronalComponent

public class CompartmentalDendrite
extends NeuronalCompartmentalComponent
implements Dendrite

Represents a dendrite whose activity is determined by the cable model (see Rawl etc.) and a compartmental discrete (numerical) approximation of its differential functions. See CompartmentalComponent.

Since:

1.0

Version:

1.0

Author:

Andrew Reid

Field Summary

Fields

Modifier and Type	Field	Description
CompartmentalDendrite	next
CompartmentalSoma	soma
java.util.ArrayList<Synapse>	synapses

Fields inherited from class mgui.neuro.components.compartments.NeuronalCompartmentalComponent

parent

Fields inherited from class mgui.neuro.components.compartments.CompartmentalComponent

compartments

Fields inherited from class mgui.neuro.components.AbstractNeuroComponent

attributes, clock, connections, events, hasSubComponents, id, listeners, solver, updated

Fields inherited from class mgui.interfaces.AbstractInterfaceObject

isDestroyed, tree_nodes

Constructor Summary

Constructors

Constructor	Description
CompartmentalDendrite()
CompartmentalDendrite(int n, double Rm, double Ra, double Cm, double length, double diameter)

Method Summary

Modifier and Type	Method	Description
void	addSynapse(Synapse s)
void	connectTo(Dendrite d)
void	connectTo(Soma s)
void	disconnect()
double	getCm()
double	getDiam()
double	getLength()
double	getRa()
double	getRm()
int	getSynapseCount()
java.util.ArrayList<Synapse>	getSynapses()
protected void	init()
boolean	isConnectedToDendrite()
boolean	isConnectedToSoma()
void	removeSynapse(Synapse s)
void	setCompartments()	Set/reset list of compartments to size N
void	setParent(Neuron n)
void	transmit(AbstractCompartment c1, AbstractCompartment c2)	Transmit signals between compartments; should update appropriate state and/or temporary variables.

Methods inherited from class mgui.neuro.components.compartments.NeuronalCompartmentalComponent

getParent

Methods inherited from class mgui.neuro.components.compartments.CompartmentalComponent

clone, executeEvent, getN, setN, timeElapsed

Methods inherited from class mgui.neuro.components.AbstractNeuroComponent

addConnection, addEvent, addListener, addToEngine, attributeUpdated, compareTo, executeEvents, fireListeners, fireListeners, getAttribute, getAttributes, getConnections, getDelay, getID, getName, getODESolver, getRate, getSolver, getSubComponents, hasSubComponents, removeConnection, removeListener, reset, resetClock, setAttribute, setAttributes, setDelay, setID, setID, setName, setODESolver, setSolver, setSolver, updateComponent, updateFromClock

Methods inherited from class mgui.models.networks.components.AbstractNetworkComponent

getAttributeValue

Methods inherited from class mgui.interfaces.AbstractInterfaceObject

clean, destroy, getTreeLabel, isDestroyed, issueTreeNode, setTreeNode, updateTreeNodes

Methods inherited from class java.lang.Object

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

Methods inherited from interface mgui.interfaces.util.CleanableObject

clean

Methods inherited from interface java.lang.Comparable

compareTo

Methods inherited from interface mgui.models.dynamic.DynamicModelComponent

addConnection, addEvent, addToEngine, clone, executeEvents, getID, getSubComponents, hasSubComponents, removeConnection, reset, setID, setID

Methods inherited from interface mgui.interfaces.InterfaceObject

destroy, isDestroyed

Methods inherited from interface mgui.interfaces.NamedObject

getName, setName

Methods inherited from interface mgui.neuro.components.NeuronalComponent

getParent

Methods inherited from interface mgui.models.dynamic.TimeStepListener

timeElapsed

Methods inherited from interface mgui.interfaces.trees.TreeObject

getTreeLabel, issueTreeNode, setTreeNode

Field Details

synapses

public java.util.ArrayList<Synapse> synapses

next

public CompartmentalDendrite next

soma

public CompartmentalSoma soma

Constructor Details

CompartmentalDendrite

public CompartmentalDendrite()

CompartmentalDendrite

public CompartmentalDendrite(int n,
double Rm,
double Ra,
double Cm,
double length,
double diameter)

Method Details

init

protected void init()

Overrides:

init in class CompartmentalComponent

setCompartments

public void setCompartments()

Description copied from class: CompartmentalComponent

Set/reset list of compartments to size N

Specified by:

setCompartments in class CompartmentalComponent

getRm

public double getRm()

getRa

public double getRa()

getCm

public double getCm()

getLength

public double getLength()

getDiam

public double getDiam()

addSynapse

public void addSynapse(Synapse s)
                throws NeuroException

Specified by:

addSynapse in interface Dendrite

Throws:

NeuroException

connectTo

public void connectTo(Dendrite d)
               throws NeuroException

Specified by:

connectTo in interface Dendrite

Throws:

NeuroException

connectTo

public void connectTo(Soma s)
               throws NeuroException

Specified by:

connectTo in interface Dendrite

Throws:

NeuroException

disconnect

public void disconnect()

Specified by:

disconnect in interface Dendrite

getSynapseCount

public int getSynapseCount()

Specified by:

getSynapseCount in interface Dendrite

getSynapses

public java.util.ArrayList<Synapse> getSynapses()

Specified by:

getSynapses in interface Dendrite

setParent

public void setParent(Neuron n)
               throws NeuroException

Specified by:

setParent in interface NeuronalComponent

Overrides:

setParent in class NeuronalCompartmentalComponent

Throws:

NeuroException

isConnectedToDendrite

public boolean isConnectedToDendrite()

Specified by:

isConnectedToDendrite in interface Dendrite

isConnectedToSoma

public boolean isConnectedToSoma()

Specified by:

isConnectedToSoma in interface Dendrite

removeSynapse

public void removeSynapse(Synapse s)

Specified by:

removeSynapse in interface Dendrite

transmit

public void transmit(AbstractCompartment c1,
AbstractCompartment c2)
              throws NeuroException

Description copied from class: CompartmentalComponent

Transmit signals between compartments; should update appropriate state and/or temporary variables.

Specified by:

transmit in class CompartmentalComponent

Throws:

NeuroException