Uses of Class
org.evoludo.util.CLOption

Packages that use CLOption

Package	Description
org.evoludo	EvoLudo - A platform for the exploration of evolutionary models.
org.evoludo.simulator	The toolkit to explore interactive evolutionary models.
org.evoludo.simulator.exec	Custom modules for running simulations on the command line.
org.evoludo.simulator.models	The models that generate evolutionary trajectories based on the specifications of each module.
org.evoludo.simulator.modules	The modules to implement various evolutionary models.
org.evoludo.util	Utility classes and functions.

Uses of CLOption in org.evoludo

Fields in org.evoludo declared as CLOption

Modifier and Type	Field	Description
final CLOption	EvoLudoWeb.cloSize	Command line option to set the size of the GUI or enter fullscreen.
final CLOption	EvoLudoWeb.cloView	Command line option to set the data view displayed in the GUI.

Uses of CLOption in org.evoludo.simulator

Fields in org.evoludo.simulator declared as CLOption

Modifier and Type	Field	Description
final CLOption	EvoLudo.cloDelay	Command line option to set the delay between subsequent updates.
final CLOption	EvoLudoGWT.cloEmulate	Command line option to mimic ePub modes and to disable device capabilities.
final CLOption	EvoLudo.cloHelp	Command line option to print help message for available command line options.
final CLOption	EvoLudo.cloModel	Command line option to set the type of model (see Type).
final CLOption	EvoLudo.cloModule	Command line option to set module.
final CLOption	EvoLudo.cloRNG	Command line option to perform test of random number generator on launch.
final CLOption	EvoLudo.cloRun	Command line option to request that the EvoLudo model immediately starts running after loading.
final CLOption	EvoLudo.cloSeed	Command line option to set seed of random number generator.
final CLOption	EvoLudoGWT.cloSnap	Command line option to request that the EvoLudo model signals the completion of of the layouting procedure for taking snapshots, e.g.
final CLOption	EvoLudo.cloTraitColorScheme	Command line option to set color scheme for coloring continuous traits.
final CLOption	EvoLudo.cloTrajectoryColor	Command line option to set the color for trajectories.
final CLOption	EvoLudo.cloVerbose	Command line option to set verbosity level of logging.

Uses of CLOption in org.evoludo.simulator.exec

Fields in org.evoludo.simulator.exec declared as CLOption

Modifier and Type	Field	Description
final CLOption	scanCSD.cloB1	Command line option to set the benefit parameter b1, or its range or its range to scan.
final CLOption	scanCSD.cloB2	Command line option to set the benefit parameter b2, or its range or its range to scan.
final CLOption	simCDLP.cloBasin	Command line option to determine the basin of attraction of punishers and cooperators.
final CLOption	scanCSD.cloBins	Command line option to set the number of bins for the distribution (histogram).
final CLOption	scanCSD.cloC1	Command line option to set the cost parameter c1, or its range or its range to scan.
final CLOption	scanCSD.cloC2	Command line option to set the cost parameter c2, or its range or its range to scan.
final CLOption	scanCSD.cloDistribution	The command line option to print the trait distribution.
final CLOption	simCDLP.cloHistogram	Command line option to generate a histogram of states visited.
final CLOption	simTraits.cloMinTime	Command line option to set the minimal measurement time.
final CLOption	simTraits.cloNPopulations	Command line option to specify the population sizes.
final CLOption	simCDL.cloNSamples	Command line option to set the number of samples for fixation probabilities.
final CLOption	simCDL.cloNSteps	Command line option to set the number of steps for initial frequencies.
final CLOption	scanCSD.cloProgress	Command line option to show the simulation progress.
final CLOption	simCDL.cloProgress	Command line option to show the simulation progress.
(package private) final CLOption	simMoran.cloProgress	Command line option to show the simulation progress.
final CLOption	simTBT.cloProgress	Command line option to show the simulation progress.
final CLOption	simTraits.cloProgress	Command line option to show the simulation progress.
final CLOption	simTBT.cloRuns	Command line option to set the number of runs.
final CLOption	simTBT.cloScanDG	Command line option to scan the donation game.
final CLOption	simCDL.cloScanNL	Command line option to set the range and increments for scanning non-linearities.
final CLOption	simTBT.cloScanST	Command line option to scan the S-T-plane.
final CLOption	scanCSD.cloSnapInterval	The command line option to set the interval for snapshots.
final CLOption	simCDLPQ.cloSnapInterval	Command line option to set the interval for taking snapshots.
final CLOption	simTBT.cloSnapInterval	Command line option to set the interval for taking snapshots.
final CLOption	simTBT.cloSnapPrefix	Command line option to set the prefix for snapshot filenames.
final CLOption	simCDLP.cloThreshold	Command line option to set the threshold for corner states.
final CLOption	simCDLP.cloTime2Punish	Command line option to determine the time to reach the threshold of punishers.

Uses of CLOption in org.evoludo.simulator.models

Fields in org.evoludo.simulator.models declared as CLOption

Modifier and Type	Field	Description
final CLOption	IBS.Statistics.clo	Command line option to customize statistics settings.
final CLOption	IBSC.Init.clo	Command line option to set the type of initial configuration.
final CLOption	IBSD.Init.clo	Command line option to set the type of initial configuration.
final CLOption	Markers.clo	Command line option to mark points on graphs (ParaGraph, S3Graph, LineGraph and HistoGraph).
final CLOption	PopulationUpdate.clo	Command line option to set the method for updating the population(s).
final CLOption	IBS.cloAccumulatedScores	Command line option to set whether player scores from interactions are accumulated or averaged (default).
final CLOption	ODE.cloAdjustedDynamics	Command line option to activate adjusted replicator dynamics (if possible) in ODE models.
final CLOption	IBS.cloConsistency	Command line option to enable consistency checks.
final CLOption	ODE.cloDEAccuracy	Command line option to set the desired accuracy of ODE calculations as criteria for convergence and whether population is monomorphic.
final CLOption	ODE.cloDEdt	Command line option to set the time increment dt in DE models.
final CLOption	IBS.cloGeometryAddwire	Command line option to set the fraction of links to add.
final CLOption	IBS.cloGeometryCompetition	Command line option to set the competition geometry.
final CLOption	IBS.cloGeometryInteraction	Command line option to set the interaction geometry.
final CLOption	IBS.cloGeometryRewire	Command line option to set the fraction of links to rewire.
final CLOption	ODE.cloInit	Command line option to set the initial configuration in ODE/SDE models.
final CLOption	IBS.cloInteractions	Command line option to set whether players interact with all their neighbours or a random subsample.
final CLOption	IBS.cloMigration	Command line option to set the migration types and probabilities of players.
final CLOption	IBSD.cloOptimize	Command line option to request optimizations.
final CLOption	Advection.cloPdeAdvection	Command line option to set the advection coefficients of every trait against all others.
final CLOption	PDE.cloPdeDiffusion	Command line option to set the diffusion coefficients.
final CLOption	PDE.cloPdeL	Command line option to set the linear extension.
final CLOption	PDE.cloPdeN	Command line option to set the discretization as the total number of spatial units to use for the numerical integration of the PDE.
final CLOption	PDE.cloPdeSymmetric	Command line option to request preservation of symmetry.
final CLOption	IBS.cloReferences	Command line option to set the method for choosing references/models among the neighbours of a player for updating their trait.
final CLOption	Model.cloSamples	Command line option to set the number of samples to take for statistical measurements.
final CLOption	IBS.cloScoringType	Command line option to set method for resetting the scores of individuals.
final CLOption	Model.cloTimeRelax	Command line option to set the number of generations to relax the model from the initial configuration.
final CLOption	ODE.cloTimeReversed	Command line option to set the number of generations between reports for EvoLudo.modelNext().
final CLOption	Model.cloTimeStep	Command line option to set the number of generations between reports for EvoLudo.modelNext().
final CLOption	Model.cloTimeStop	Command line option to set the number of generations after which to stop the model calculations.

Uses of CLOption in org.evoludo.simulator.modules

Fields in org.evoludo.simulator.modules declared as CLOption

Modifier and Type	Field	Description
final CLOption	Map2Fitness.clo	Command line option to set the payoff/score to fitness map.
final CLOption	Mutation.Continuous.clo	Command line option to set the type of player updates.
final CLOption	Mutation.Discrete.clo	Command line option to set the type of player updates.
final CLOption	PlayerUpdate.clo	Command line option to set the type of player updates.
final CLOption	SpeciesUpdate.clo	Command line option to set the method for updating the population(s).
final CLOption	ATBT.cloAsymmetry	Command line option to set the origin of asymmetries to differences in genotype or in the environment.
final CLOption	Centipede.cloBenefit	Command line option to set the benefit of cooperation, i.e.
final CLOption	Continuous.cloBenefits	Command line option to set the benefit function(s) for continuous traits.
final CLOption	NetGames.cloColors	Command line option to set the colors for altruists, fair players, and egoists.
final CLOption	CDL.cloCost	Command line option to set the cost of cooperation, i.e.
final CLOption	Centipede.cloCost	Command line option to set the cost of cooperation, i.e.
final CLOption	EcoPGG.cloCost	Command line option to set the cost of cooperation, i.e.
final CLOption	CDLPQ.cloCostPoolPunish	Command line option to set the cost of pool punishment.
final CLOption	CDLP.cloCostPunish	Command line option to set the cost of peer punishment.
final CLOption	Continuous.cloCosts	Command line option to set the cost function(s) for continuous traits.
final CLOption	Module.cloDeathRate	Command line option to set death rate for ecological population updates.
final CLOption	ATBT.cloEnvironment	Command line option to set the environmental values of the two different patch types.
final CLOption	ATBT.cloFeedback	Command line option to set the feedback between traits and patch quality.
final CLOption	Moran.cloFitness	Command line option to set the fitness values for residents and mutants.
final CLOption	Module.cloGeometry	Command line option to set the geometry (interaction and competition graphs identical).
final CLOption	SIR.cloInfect	Command line option to set the transition probability for S -> I.
final CLOption	CDL.cloInterest	Command line option to set the multiplication factor for public good interactions.
final CLOption	EcoPGG.cloInterest	Command line option to set the multiplication factor for public good interactions.
final CLOption	CDLP.cloLeniencyCooperators	Command line option to set the leniency of peer punishers towards cooperators, provided the composition of the interaction group reveals them as second-order free riders.
final CLOption	CDLP.cloLeniencyLoners	Command line option to set the leniency of peer punishers towards loners.
final CLOption	CDL.cloLoneCooperator	Command line option to set the payoff to cooperators that failed to find any interaction partners.
final CLOption	EcoPGG.cloLoneCooperator	Command line option to set the payoff to cooperators that failed to find any interaction partners.
final CLOption	CDL.cloLoneDefector	Command line option to set the payoff to defectors that failed to find any interaction partners.
final CLOption	EcoPGG.cloLoneDefector	Command line option to set the payoff to defectors that failed to find any interaction partners.
final CLOption	CDL.cloLoner	Command line option to set the payoff to loners that refuse to participate in the public goods interaction.
final CLOption	Discrete.cloMonoStop	Command line option to request that models stop execution when reaching monomorphic population states.
final CLOption	Module.cloNGroup	Command line option to set the size of interaction groups.
final CLOption	Centipede.cloNodes	Command line option to set the maximum number of decision nodes for the centipede game.
final CLOption	Module.cloNPopulation	Command line option to set the population size.
final CLOption	CDL.cloOthers	Command line option to set whether contributors get a share of the benefits generated by their own contributions.
final CLOption	RSP.cloPayoff	Command line option to set the payoff matrix.
final CLOption	TBT.cloPayoffs	Command line option to set the 2×2 payoff matrix for interactions between cooperators and defectors.
final CLOption	ATBT.cloPayoffs4x4	Command line option to set the 2×2 payoff matrix for interactions between cooperators and defectors or the (generic) 4×4 payoff matrix for arbitrary interactions between four traits.
final CLOption	Module.cloPhase2DAxes	Command line option to set the traits on phase plane axes.
final CLOption	CDLPQ.cloPoolPunish	Command line option to set the fine of pool punishment for non-contributors.
final CLOption	Predator.cloPredator	Command line option to set the predator parameters.
final CLOption	LV.cloPrey	Command line option to set the prey parameters.
final CLOption	CDLP.cloPunishment	Command line option to set the fine of peer punishment for non-contributors.
final CLOption	NetGames.cloRatio	Command line option to set the cost-to-benefit ratio of cooperation.
final CLOption	SIR.cloRecover	Command line option to set the transition probability for I -> R.
final CLOption	SIR.cloResist	Command line option to set the transition probability for R -> S.
final CLOption	NetGames.cloSelection	Command line option to set the cost-to-benefit ratio of cooperation.
final CLOption	CDL.cloSolo	Command line option to set whether a single contributor suffices to generate the public good.
final CLOption	Module.cloTraitColors	Command line option to set the color of traits.
final CLOption	Module.cloTraitDisable	Command line option to disable individual traits.
final CLOption	Module.cloTraitNames	Command line option to assign trait names.
final CLOption	Continuous.cloTraitRange	Command line option to set the minimum value of each trait.

Uses of CLOption in org.evoludo.util

Fields in org.evoludo.util with type parameters of type CLOption

Modifier and Type	Field	Description
(package private) List<CLOption>	CLOParser.options	List of command line options available (after parsing).

Methods in org.evoludo.util that return CLOption

Modifier and Type	Method	Description
CLOption	CLOParser.getCLO(String name)	Return option with name from current list of command line options.

Methods in org.evoludo.util that return types with arguments of type CLOption

Modifier and Type	Method	Description
List<CLOption>	CLOParser.getCLOptions()	Get the current list of command line options.

Methods in org.evoludo.util with parameters of type CLOption

Modifier and Type	Method	Description
void	CLOParser.addCLO(CLOption option)	Adds option to current list of command line options.
int	CLOption.compareTo(CLOption opt)
void	CLOption.inheritKeysFrom(CLOption option)	Inherit keys from another option.
boolean	CLOParser.removeCLO(CLOption option)	Remove option from current list of command line options.