C# Class Medium, Hero.Coli

Inheritance: Barrel

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Public Properties

Property	Type	Description
enableShufflingReactionOrder	bool

Public Methods

Method	Description
Init ( LinkedList reactionsSets, LinkedList moleculesSets ) : void
Log ( Logger level = Logger.Level.TRACE ) : void
ResetVariation ( ) : void
ToString ( ) : string
ToStringDetailed ( ) : string
Update ( ) : void
addEnergy ( float v ) : void
addMolConcentration ( string name, float value ) : void
addReaction ( IReaction, reaction ) : void
addVariation ( float variation ) : void
applyVariation ( ) : void
enableEnergy ( bool b ) : void
enableNoise ( bool b ) : void
enableSequential ( bool b ) : void
getEnergy ( ) : float
getEnergyProductionRate ( ) : float
getEnergyVariation ( ) : float
getId ( ) : int
getMaxEnergy ( ) : float
getMoleculeSet ( ) : string
getMolecules ( ) : ArrayList
getName ( ) : string
getReactionSet ( ) : string
getReactions ( ) : LinkedList
getTag ( ) : string
initDegradationReactions ( ArrayList allMolecules ) : void
initMoleculesFromMoleculeSets ( MoleculeSet molSet, ArrayList allMolecules ) : void
initReactionsFromReactionSet ( ReactionSet reactionsSet ) : void
removeReaction ( IReaction, reaction, bool checkNameAndMedium ) : void
removeReactionByName ( string name ) : void
setEnergy ( float v ) : void
setEnergyProductionRate ( float v ) : void
setId ( int id ) : void
setMaxEnergy ( float v ) : void
setMoleculeSet ( string moleculesSet ) : void
setName ( string name ) : void
setReactionSet ( string reactionsSet ) : void
setReactions ( LinkedList RL ) : void
subEnergy ( float v ) : void
subMolConcentration ( string name, float value ) : void
tryInstantiateFromXml ( XmlNode, node ) : bool
updateMoleculesConcentrations ( ) : void

Private Methods

Method	Description
initATPProduction ( ) : void
loadEnergy ( string value ) : bool
loadEnergyProductionRate ( string value ) : bool
loadMaxEnergy ( string value ) : bool
manageMoleculeConcentrationWithKey ( String molecule ) : void

Method Details

Init() public method

public Init ( LinkedList reactionsSets, LinkedList moleculesSets ) : void
reactionsSets	LinkedList
moleculesSets	LinkedList
return	void

Log() public method

public Log ( Logger level = Logger.Level.TRACE ) : void
level	Logger
return	void

ResetVariation() public method

public ResetVariation ( ) : void
return	void

ToString() public method

public ToString ( ) : string
return	string

ToStringDetailed() public method

public ToStringDetailed ( ) : string
return	string

Update() public method

public Update ( ) : void
return	void

addEnergy() public method

public addEnergy ( float v ) : void
v	float
return	void

addMolConcentration() public method

public addMolConcentration ( string name, float value ) : void
name	string
value	float
return	void

addReaction() public method

public addReaction ( IReaction, reaction ) : void
reaction	IReaction,
return	void

addVariation() public method

public addVariation ( float variation ) : void
variation	float
return	void

applyVariation() public method

public applyVariation ( ) : void
return	void

enableEnergy() public method

public enableEnergy ( bool b ) : void
b	bool
return	void

enableNoise() public method

public enableNoise ( bool b ) : void
b	bool
return	void

enableSequential() public method

public enableSequential ( bool b ) : void
b	bool
return	void

getEnergy() public method

public getEnergy ( ) : float
return	float

getEnergyProductionRate() public method

public getEnergyProductionRate ( ) : float
return	float

getEnergyVariation() public method

public getEnergyVariation ( ) : float
return	float

getId() public method

public getId ( ) : int
return	int

getMaxEnergy() public method

public getMaxEnergy ( ) : float
return	float

getMoleculeSet() public method

public getMoleculeSet ( ) : string
return	string

getMolecules() public method

public getMolecules ( ) : ArrayList
return	ArrayList

getName() public method

public getName ( ) : string
return	string

getReactionSet() public method

public getReactionSet ( ) : string
return	string

getReactions() public method

public getReactions ( ) : LinkedList
return	LinkedList

getTag() public method

public getTag ( ) : string
return	string

initDegradationReactions() public method

public initDegradationReactions ( ArrayList allMolecules ) : void
allMolecules	ArrayList
return	void

initMoleculesFromMoleculeSets() public method

public initMoleculesFromMoleculeSets ( MoleculeSet molSet, ArrayList allMolecules ) : void
molSet	MoleculeSet
allMolecules	ArrayList
return	void

initReactionsFromReactionSet() public method

public initReactionsFromReactionSet ( ReactionSet reactionsSet ) : void
reactionsSet	ReactionSet
return	void

removeReaction() public method

public removeReaction ( IReaction, reaction, bool checkNameAndMedium ) : void
reaction	IReaction,
checkNameAndMedium	bool
return	void

removeReactionByName() public method

public removeReactionByName ( string name ) : void
name	string
return	void

setEnergy() public method

public setEnergy ( float v ) : void
v	float
return	void

setEnergyProductionRate() public method

public setEnergyProductionRate ( float v ) : void
v	float
return	void

setId() public method

public setId ( int id ) : void
id	int
return	void

setMaxEnergy() public method

public setMaxEnergy ( float v ) : void
v	float
return	void

setMoleculeSet() public method

public setMoleculeSet ( string moleculesSet ) : void
moleculesSet	string
return	void

setName() public method

public setName ( string name ) : void
name	string
return	void

setReactionSet() public method

public setReactionSet ( string reactionsSet ) : void
reactionsSet	string
return	void

setReactions() public method

public setReactions ( LinkedList RL ) : void
RL	LinkedList
return	void

subEnergy() public method

public subEnergy ( float v ) : void
v	float
return	void

subMolConcentration() public method

public subMolConcentration ( string name, float value ) : void
name	string
value	float
return	void

tryInstantiateFromXml() public method

public tryInstantiateFromXml ( XmlNode, node ) : bool
node	XmlNode,
return	bool

updateMoleculesConcentrations() public method

public updateMoleculesConcentrations ( ) : void
return	void

Property Details

enableShufflingReactionOrder public_oe property

public bool enableShufflingReactionOrder
return	bool