com.rubecula.darwin.domain.helper
Interface Phenotype

All Superinterfaces:

CacheSignature, Censusible, Fit, net.sf.tostring0.Identifiable, net.sf.tostring0.IToString, TraitMap

All Known Implementing Classes:

Phenotype_, Phenotype_Dawkinsian, Phenotype_TS

public interface Phenotype
extends Fit, net.sf.tostring0.IToString, TraitMap, net.sf.tostring0.Identifiable

Defines the methods supported by instances of Phenotype interface. The phenotype can be evaluated for fitness in the context of an environment. It can also be evaluated for attraction in the context of a sexual mating ("sexual selection").
A phenotype consists of a Set of Traits backed by HashMap. The set of traits is defined by the system's Phenome.

TODO consider renaming this family of types as Phenome...

Version:

$Revision: 1.16 $

Author:

Robin Hillyard

Field Summary

Fields inherited from interface net.sf.tostring0.IToString

ANGBR_OPEN, ANGBRA_CLSE, BRA_CLSE, BRA_OPEN, BRCE_OPEN, BRCS_CLSE, COLON, LIST_SEPARATOR, MAX_ELEMENTS_DEFAULT, S_MT, S_PERCENT, SEPARATOR, SPACE

Method Summary

void	addExtended(ExPhen expression)
java.lang.String	addTrait(java.lang.String key, Trait trait)
java.lang.String	addTrait(Trait trait) Add the given trait to this Phenotype.
void	doCensus(Pharacter character, FrequencyMap<Trait> traitFrequencies)
java.util.Collection<ExPhen>	getExtendedPhenotypes()
TraitMap	getSexTraits()

Methods inherited from interface net.sf.tostring0.IToString

toString, toStringBrief, toStringId

Methods inherited from interface com.rubecula.darwin.domain.helper.TraitMap

getKeys, getTrait, getTraits, size

Methods inherited from interface com.rubecula.darwin.domain.helper.CacheSignature

getSignature

Methods inherited from interface com.rubecula.darwin.domain.helper.Censusible

censusMe, getCensusibleChildren

Methods inherited from interface net.sf.tostring0.Identifiable

getIdentifier

Method Detail

addExtended

void addExtended(ExPhen expression)

Parameters:

expression -

addTrait

java.lang.String addTrait(java.lang.String key,
                          Trait trait)

Parameters:

key -

trait -

Returns:

the key of the newly added trait

addTrait

java.lang.String addTrait(Trait trait)

Add the given trait to this Phenotype.

Parameters:

trait - the trait.

Returns:

the key that this trait is indexed under.

doCensus

void doCensus(Pharacter character,
              FrequencyMap<Trait> traitFrequencies)

Parameters:

character -

traitFrequencies -

getExtendedPhenotypes

java.util.Collection<ExPhen> getExtendedPhenotypes()

Returns:

a collection of extended phenotype, ExPhen, objects.

getSexTraits

TraitMap getSexTraits()

Returns:

the sex-linked traits as a TraitMap