Stores parameters common to the Particulate EPS species - representing generic extracellular polymers and contains only the 'capsule' type. More...

Inheritance diagram for simulator.agent.zoo.ParticulateEPSParam:

Public Member Functions
	ParticulateEPSParam ()
	Creates a parameter storage object for the Particulate EPS species type. More...

void	init (Simulator aSim, XMLParser aSpeciesRoot)
	Initialises Particulate EPS Species parameters, calling the relevant superclasses to initialise common parameters and setting the transfer radius. More...

Public Member Functions inherited from simulator.agent.LocatedParam
	LocatedParam ()
	Create a new LocatedParam parameter storage object, calling the relevant extended class constructors. More...

void	init (Simulator aSim, XMLParser aSpeciesRoot)
	Assigns values to each of the location and behavioural specific parameters, reading these from the protocol file. More...

double	getCellRunSpeed ()
	Return the cell run speed. Used in agent self-attachment scenarios. More...

double	getStickinessRadius ()
	Return the cell stickiness radius. Used in agent self-attachment scenarios. More...

Public Member Functions inherited from simulator.agent.ActiveParam
void	init (Simulator aSim, XMLParser aSpeciesRoot)
	Stores the reaction parameters for an active species and calculates the particle density of compounds involved in the reaction. More...

Public Member Functions inherited from simulator.agent.SpeciesParam
void	init (Simulator aSim, XMLParser aSpeciesRoot)
	Read in specific parameters for this species, changing the default if required. More...

Public Attributes
double	transferRadius

Public Attributes inherited from simulator.agent.LocatedParam
double	divRadius = .97

double	divRadiusCV = .1

double	babyMassFrac = .5

double	babyMassFracCV = .1

double	deathRadius = .2

double	deathRadiusCV = .1

double	shoveFactor = 1.15

double	shoveLimit = 0

double	cellRunSpeed

double	tumbleInterval

double	stickinessAddition

Public Attributes inherited from simulator.agent.ActiveParam
double[]	particleDensity

double[][]	soluteYield

double[][]	particleYield

double[][]	reactionKinetic

double[]	lysisYield

Public Attributes inherited from simulator.agent.SpeciesParam
double	initialMassCV = .1

Detailed Description

Stores parameters common to the Particulate EPS species - representing generic extracellular polymers and contains only the 'capsule' type.

Author: Laurent Lardon (lardo.nosp@m.nl@s.nosp@m.upagr.nosp@m.o.in.nosp@m.ra.fr), INRA, France

Constructor & Destructor Documentation

simulator.agent.zoo.ParticulateEPSParam.ParticulateEPSParam ( )

Creates a parameter storage object for the Particulate EPS species type.

Creates a parameter storage object for the Particulate EPS species type

void simulator.agent.zoo.ParticulateEPSParam.init	(	Simulator	aSim,
		XMLParser	aSpeciesRoot
	)

Initialises Particulate EPS Species parameters, calling the relevant superclasses to initialise common parameters and setting the transfer radius.

Initialises Particulate EPS Species parameters, calling the relevant superclasses to initialise common parameters and setting the transfer radius

Parameters

aSim	The simulation object used to simulate the conditions specified in the protocol file
aSpeciesRoot	A species mark-up within the specified protocol file

double simulator.agent.zoo.ParticulateEPSParam.transferRadius

Radius at which an agent will transfer biomass to another agent upon the agents death

The documentation for this class was generated from the following file:

/home/kieran/Dropbox/workspace/iDynoMiCS/src/simulator/agent/zoo/ParticulateEPSParam.java