A B C D E F G I J K L M N O P R S T U V W X

S

save(String) - Static method in class jenes.performance.PerformanceStatistics

save(String) - Method in class jenes.performance.Statistics

save() - Method in class jenes.statistics.StatisticsLogger

Saves the undelying logger.

save() - Method in class jenes.utils.AbstractLogger

Saves cached records on media.

scale(Individual<T>, int) - Method in class jenes.stage.operator.common.RankScaling

scale(Individual<T>, int) - Method in class jenes.stage.operator.Scaling

Scaling<T extends Chromosome> - Class in jenes.stage.operator

Scaling() - Constructor for class jenes.stage.operator.Scaling

Constructs a new mutator instance with the specified mutator probability

schema - Variable in class jenes.utils.AbstractLogger

The statistics schema

select(Population<T>) - Method in class jenes.stage.operator.common.RouletteWheelSelector

select(Population<T>) - Method in class jenes.stage.operator.common.TournamentSelector

select(Population<T>) - Method in class jenes.stage.operator.Selector

Selects a population according to a politics of selection.

selections - Variable in class jenes.stage.operator.Selector.Statistics

Number of selections performed.

Selector<T extends Chromosome> - Class in jenes.stage.operator

A class representing a generic selection operator.

Selector() - Constructor for class jenes.stage.operator.Selector

Constructs a new SelectorOperator with the specified sample individual

Selector.Statistics - Class in jenes.stage.operator

A statistics object holding the number of selection performed and the time spent to execute them.

Selector.Statistics() - Constructor for class jenes.stage.operator.Selector.Statistics

Sequence<T extends Chromosome> - Class in jenes.stage

A sequence is like a "pipe" of other stages.

Sequence() - Constructor for class jenes.stage.Sequence

Constructs a new sequence stage.

setAlleleSet(AlleleSet) - Method in class jenes.chromosome.ObjectChromosome.Gene

Sets the alleleSet of this Gene

setAs(BitwiseChromosome) - Method in class jenes.chromosome.BitwiseChromosome

Sets this chromosome as a copy of another.

setAs(BooleanChromosome) - Method in class jenes.chromosome.BooleanChromosome

setAs(T) - Method in interface jenes.chromosome.Chromosome

Makes the chromosome a copy of another chromosome.

setAs(DoubleChromosome) - Method in class jenes.chromosome.DoubleChromosome

setAs(IntegerChromosome) - Method in class jenes.chromosome.IntegerChromosome

setAs(ObjectChromosome) - Method in class jenes.chromosome.ObjectChromosome

setAs(PermutationChromosome) - Method in class jenes.chromosome.PermutationChromosome

setAs(Individual<T>) - Method in class jenes.population.Individual

Sets this Individual's genome equal to the specified Individual's one

setAs(Population<T>) - Method in class jenes.population.Population

Sets this population as the specified one.

setBiggerIsBetter(boolean) - Method in class jenes.GeneticAlgorithm

Sets the algorithm's body objective to maximize (true) or minimize (false) the individual fitness.

setBiggerIsBetter(boolean) - Method in class jenes.stage.AbstractStage

Sets if the best individuals have the higher fitness or not.

setBiggerIsBetter(boolean, boolean) - Method in class jenes.stage.AbstractStage

Sets if the best individuals have the higher fitness or not.

setBiggerIsBetter(boolean, boolean) - Method in class jenes.stage.AlgorithmStage

setBiggerIsBetter(boolean, boolean) - Method in class jenes.stage.Parallel

setBiggerIsBetter(boolean, boolean) - Method in class jenes.stage.Sequence

setBitValueAt(int, int) - Method in class jenes.chromosome.BitwiseChromosome

Sets the bit at a given position.

setBranch(int, AbstractStage<T>) - Method in class jenes.stage.Parallel

Sets the specified stage at the specified branch number replacing the stage already present

setCapacity(double) - Method in class jenes.tutorials.problem6.KnapsackGA

setCapacity(double) - Method in class jenes.tutorials.problem6.KnapsackProblem

setCapacity(double) - Method in class jenes.tutorials.problem7.KnapsackLoggedProblem

setChromosome(T) - Method in class jenes.population.Individual

Sets the Individual's genome

setCrossoverProbability(double) - Method in class jenes.algorithms.SimpleGA

Sets the crossover probability.

setDefaultValue(boolean) - Method in class jenes.chromosome.BooleanChromosome

Sets the default value of this chromosome

setDefaultValue(double) - Method in class jenes.chromosome.DoubleChromosome

Sets the default value of this chromosome

setDefaultValue(int) - Method in class jenes.chromosome.IntegerChromosome

Sets the default value of this chromosome

setDefaultValue(Object) - Method in class jenes.chromosome.ObjectChromosome

Sets the default value of this chromosome.

setDefaultValueAt(int) - Method in class jenes.chromosome.BitwiseChromosome

Sets the default bit value at the a given position

setDefaultValueAt(int) - Method in class jenes.chromosome.BooleanChromosome

setDefaultValueAt(int) - Method in interface jenes.chromosome.Chromosome

Sets the default value at a given position

setDefaultValueAt(int) - Method in class jenes.chromosome.DoubleChromosome

setDefaultValueAt(int) - Method in class jenes.chromosome.IntegerChromosome

setDefaultValueAt(int) - Method in class jenes.chromosome.ObjectChromosome

setDefaultValueAt(int) - Method in class jenes.chromosome.PermutationChromosome

Sets the default value at the specified position.

setElitism(int) - Method in class jenes.GeneticAlgorithm

Sets the number of individuals considered for elitism by the genetic algorithm.

setElitismStrategy(GeneticAlgorithm.ElitismStrategy) - Method in class jenes.GeneticAlgorithm

Sets the elitism strategy to used by this genetic algorithm.

setForce(boolean) - Method in class jenes.stage.Evaluator

Sets the value of force.

setFullEvaluationForced(boolean) - Method in class jenes.GeneticAlgorithm

Sets the evalaution mode.

setGene(int, Object) - Method in class jenes.chromosome.ObjectChromosome

Sets the specified value at the specified position

setGenerationLimit(int) - Method in class jenes.GeneticAlgorithm

Sets the generation limit

setHistorySize(int) - Method in class jenes.GeneticAlgorithm

Sets the history size, that is the number of populations kept by history.

setIndividual(Individual<T>, int) - Method in class jenes.population.Population

Replaces the individual at the specified position in this population with the specified one.

setIndividualAs(int, Individual<T>) - Method in class jenes.population.Population

Sets the Individual at the specified position equal to the specified one

setIntValueAt(int, int) - Method in class jenes.chromosome.BitwiseChromosome

Sets the int value at the specified position

setLegal(boolean) - Method in class jenes.population.Individual

Sets the legal state of this individual

setLine(int) - Method in class jenes.utils.XLSLogger

Sets the current recording row at a specified value.

setMaxIllegalRate(double) - Method in class jenes.algorithms.SimpleGA

Sets the max rate of illegal individuals.

setMaxIllegalRate(double) - Method in class jenes.stage.operator.Selector

Sets the max number of illegal individuals this selector operator can select.

setMutationProbability(double) - Method in class jenes.algorithms.SimpleGA

Sets the mutation probability.

setNotEvaluated() - Method in class jenes.population.Individual

Sets this individual as not evaluated.

setParams(String, int) - Static method in class jenes.performance.PerformanceStatistics

setPrecision(int) - Method in class jenes.tutorials.problem2.PatternGA

setProbability(double) - Method in class jenes.stage.operator.Crossover

Sets the crossover probability

setProbability(double) - Method in class jenes.stage.operator.Mutator

Sets the mutator probability

setRandomization(boolean) - Method in class jenes.GeneticAlgorithm

Sets the randomization rate to 0 or 1, according to the flag.

setRandomization(double) - Method in class jenes.GeneticAlgorithm

Sets the randomization rate.

setResizeStrategy(GeneticAlgorithm.ResizeStrategy) - Method in class jenes.GeneticAlgorithm

Sets the resize stragety.

setSameChromosomeSameFitness(boolean) - Static method in class jenes.population.Individual

Set to true if individual with the same chromosome must have also the same fitness (if evaluated), false otherwise

setScore(double) - Method in class jenes.population.Individual

Sets the Individual's fitness value.

setSeed(long) - Method in class jenes.utils.MersenneTwisterFast

Initalize the pseudo random number generator.

setStandardSeed() - Method in class jenes.utils.Random

Sets the stardard value as Random seed.

setTarget(int[]) - Method in class jenes.tutorials.problem2.PatternGA

setTimeSeed() - Method in class jenes.utils.Random

Sets the current time as Random seed.

setValue(int, Object) - Method in class jenes.chromosome.BitwiseChromosome

Sets the specified object value at the given position.

setValue(int, boolean) - Method in class jenes.chromosome.BooleanChromosome

Sets the specified value at the specified position

setValue(int, double) - Method in class jenes.chromosome.DoubleChromosome

Sets the specified value at the specified position

setValue(int, int) - Method in class jenes.chromosome.IntegerChromosome

Sets the specified value at the specified position

setValue(Object) - Method in class jenes.chromosome.ObjectChromosome.Gene

Sets the gene value to this gene

setValueAt(boolean, int) - Method in class jenes.chromosome.BooleanChromosome

Sets a new boolean value at the specified position

ShortCoding - Class in jenes.chromosome.codings

Represents a short coding with 16 bits.

ShortCoding() - Constructor for class jenes.chromosome.codings.ShortCoding

Default constructor.

ShortCoding(ShortCoding.Mode) - Constructor for class jenes.chromosome.codings.ShortCoding

Creates a ShortCoding with the specified mode, that is the number representation scheme.

ShortCoding.Mode - Enum in jenes.chromosome.codings

The integer coding representations

SimpleDispenser<T extends Chromosome> - Class in jenes.tutorials.problem2

Tutorial showing how to extend GeneticAlgorithm and how to use the flexible and configurable breeding structure in Jenes.

SimpleDispenser(int) - Constructor for class jenes.tutorials.problem2.SimpleDispenser

SimpleGA<T extends Chromosome> - Class in jenes.algorithms

A facade providing a simple interface to GeneticAlgorithm.

SimpleGA() - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa with no initial population, the default generation limit, crossover and mutation probability, elitism, selection and crossover methods, and elitism strategy.

SimpleGA(Population<T>) - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa with the default generation limit, crossover and mutation probability, elitism, selection and crossover methods, and elitism strategy.

SimpleGA(Population<T>, int) - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa with the default crossover and mutation probability, elitism, selection and crossover methods, and elitism strategy.

SimpleGA(Population<T>, int, double, double) - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa with the default elitism, selection and crossover methods, and elitism strategy.

SimpleGA(Population<T>, int, double, double, int) - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa with the default selection and crossover methods, and elitism strategy.

SimpleGA(Population<T>, int, double, double, int, SimpleGA.SelectionMethod, SimpleGA.CrossoverMethod) - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa with the default elitism strategy.

SimpleGA(Population<T>, int, double, double, int, SimpleGA.SelectionMethod, SimpleGA.CrossoverMethod, GeneticAlgorithm.ElitismStrategy) - Constructor for class jenes.algorithms.SimpleGA

Builds a new SimpleGa.

SimpleGA.CrossoverMethod - Enum in jenes.algorithms

Provides the available crossover methods

SimpleGA.SelectionMethod - Enum in jenes.algorithms

Provides the available selection methods

simpleMap(int) - Static method in class jenes.tutorials.problem3.TravelSalesmanProblem

SimpleMutator<T extends Chromosome> - Class in jenes.stage.operator.common

A simple mutation operator.

SimpleMutator(double) - Constructor for class jenes.stage.operator.common.SimpleMutator

Constructs a new simple mutator with the specified probability

size() - Method in interface jenes.chromosome.AlleleSet

Returns the alphabet size

SIZE - Variable in class jenes.chromosome.BitwiseChromosome.BitCoding

The bit structure characteristics.

size() - Method in class jenes.chromosome.GenericAlleleSet

Returns the number of alleles held by the allele set.

size() - Method in class jenes.population.Population

Returns the number of chromosomes contained by this population.

solve() - Method in class jenes.performance.DeJongTest

solve() - Method in class jenes.performance.RoyalTest

solve() - Method in class jenes.performance.TravelSalesmanProblem

solve() - Method in class jenes.tutorials.problem3.TravelSalesmanProblem

solvePC() - Method in class jenes.tutorials.problem3.TravelSalesmanProblem

sort() - Method in class jenes.population.Population

Sorts the individuals of this population

span - Variable in class jenes.stage.Dispenser

The dispencer amplitude, that is the number of populations where it will add individuals in the distribution method

span() - Method in class jenes.stage.Dispenser

Returns the dispenser amplitude.

spread() - Method in class jenes.performance.TSPCrossover

spread() - Method in class jenes.stage.operator.common.OnePointCrossover

spread() - Method in class jenes.stage.operator.common.TwoPointsCrossover

Returns the number of individuals involved by this crossover operator

spread() - Method in class jenes.stage.operator.Crossover

Returns the number of individuals involved by this crossover operator

spread() - Method in class jenes.tutorials.problem3.TSPCityCenteredCrossover

Returns the number of chromosomes (i.e. 2) this operator entails.

StageException - Exception in jenes.stage

An exception thrown during a stage processing.

StageException(String, Throwable) - Constructor for exception jenes.stage.StageException

Constructs a new StageException with the specified message and the specified cause

StageException(String) - Constructor for exception jenes.stage.StageException

Constructs a new StageException with the specified message

StageException(Throwable) - Constructor for exception jenes.stage.StageException

Constructs a new StageException with the specified cause

STANDARD_SEED - Static variable in class jenes.utils.Random

The seed used as default

start(boolean) - Method in class jenes.GeneticAlgorithm

Starts this genetic algorithm.

statistics - Variable in class jenes.GeneticAlgorithm

The statistics object responsible for storing statistics about this genetic algorithm.

Statistics - Class in jenes.performance

Statistics() - Constructor for class jenes.performance.Statistics

statistics - Variable in class jenes.stage.operator.Operator

the operator statistics

Statistics.Event - Class in jenes.performance

Statistics.Event() - Constructor for class jenes.performance.Statistics.Event

StatisticsLogger - Class in jenes.statistics

This class provides an utility wrapper for logging the statistics.

StatisticsLogger(AbstractLogger, String...) - Constructor for class jenes.statistics.StatisticsLogger

Creastes a StatisticsLogger.

StatisticsLogger.Loggable - Annotation Type in jenes.statistics

Annotation for methods providing some figure in a LoggableStatistics object.

StatisticsLogger.LoggableStatistics - Class in jenes.statistics

This class provides the support for making a statistics loggable.

StatisticsLogger.LoggableStatistics() - Constructor for class jenes.statistics.StatisticsLogger.LoggableStatistics

Constructs a new LoggableStatistics, retriving the names of figures by reflection.

stop() - Method in class jenes.GeneticAlgorithm

Terminates the genetic algorithm, notifying the stop event to listeners.

store() - Method in class jenes.utils.AbstractLogger

Stores the current record.

store() - Method in class jenes.utils.CSVLogger

store() - Method in class jenes.utils.XLSLogger

swap(int, int) - Method in class jenes.chromosome.BitwiseChromosome

Swaps two bits at given positions

swap(int, int) - Method in class jenes.chromosome.BooleanChromosome

swap(int, int) - Method in interface jenes.chromosome.Chromosome

Exchanges two genes at the specified positions

swap(int, int) - Method in class jenes.chromosome.DoubleChromosome

swap(int, int) - Method in class jenes.chromosome.IntegerChromosome

swap(int, int) - Method in class jenes.chromosome.ObjectChromosome

swap(int, int) - Method in class jenes.chromosome.PermutationChromosome

swap(Population<T>) - Method in class jenes.population.Population

Swaps this population with the speficied one; the age and the individuals will be swapped by this operation.