com.rubecula.darwin.core
Interface Organism

All Superinterfaces:

Auditable, Fit, Identifiable

All Known Implementing Classes:

Organism_Abstract, Organism_Asexual, Organism_Sexual

public interface Organism
extends Fit, Auditable

Defines methods of an individual organism within a Darwinian System. An Organism exhibits the following properties:

genotype

the (possibly) unique genotype for the individual, (from which may be derived a Phenotype in the context of a Genome);

age

the age of the individual (a count of the number of times the method age() has been called on it);

phenotype

the phenotype of this individual (not necessarily a fixed property - may be derived on the fly)

;

population

the population to which this organism belongs;

Version:

$Revision: 1.1 $

Author:

Robin Hillyard

Method Summary

void	age() Mutating method to "age" this organism by one generation.
double	calculateMortality(double fitness)
Genotype	createGamete() Method to create a new Gamete for this Organism by the process of Meiosis.
int	getAge()
Genotype	getGenotype()
Phenotype	getPhenotype()
Population	getPopulation() Method to determine to which population this organism currently belongs.
boolean	isViable()
void	setPopulation(Population population) Mutating method to change the current population for this organism, as a result of migration.
void	setViable(boolean viable)

Methods inherited from interface com.rubecula.darwin.core.Fit

evaluateFitness

Methods inherited from interface com.rubecula.util.Auditable

audit, audit, audit

Methods inherited from interface com.rubecula.util.Identifiable

getIdentifier

Method Detail

age

void age()

Mutating method to "age" this organism by one generation.

calculateMortality

double calculateMortality(double fitness)

Parameters:

fitness -

Returns:

a value for the mortality of this Organism, given its fitness value.

createGamete

Genotype createGamete()

Method to create a new Gamete for this Organism by the process of Meiosis.

Returns:

the new gamete as a (haploid) Genotype.

getAge

int getAge()

Returns:

the current age of this organism

getGenotype

Genotype getGenotype()

Returns:

the genotype for this organism.

getPhenotype

Phenotype getPhenotype()

Returns:

the phenotype for this organism.

getPopulation

Population getPopulation()

Method to determine to which population this organism currently belongs.

Returns:

the population to which this organism belongs.

isViable

boolean isViable()

Returns:

true if this organism is part of a population model (generally this is true, except temporarily when an organism is first born or newly dead)

setPopulation

void setPopulation(Population population)

Mutating method to change the current population for this organism, as a result of migration.

Parameters:

population - the new population to which this organism now belongs.

setViable

void setViable(boolean viable)

Parameters:

viable - if false, then we (temporarily) mark this organism as not being part of a population model.