Clonal Selection Algorithm (see e.g. http://en.wikipedia.org/wiki/Clonal_Selection_Algorithm).This CLONALG implements:
- cloning Versions:
- static cloning : n of the best antibodies are cloned beta*populationSize times
- proportional cloning: number of clones per antibody is proportional to that ab's fitness
- inversely proportional hypermutation : better antibodies are mutated less
- selectionSchemes:
- CLONALG1 - at new generation each antibody will be substituded by the best individual of its set of beta*population clones
- CLONALG2 - new generation will be formed by the best (1-d)*populationSize clones ( or all if the number of clones is less than that )
- birthPhase: where d * populationSize of new antibodies are randomly created and added to the population for diversification.
#include <AlgClonalg.h>
Public Member Functions | |
| void | registerParameters (StateP state) |
| Register algorithm's parameters (if any). | |
| bool | initialize (StateP state) |
| Initialize the algorithm, read parameters from the system, do a sanity check. | |
| bool | advanceGeneration (StateP state, DemeP deme) |
| Perform a single generation on a single deme. | |
| bool | markAntibodies (DemeP deme) |
| mark antibodies so the alg can know which clone belongs to which parent Antibody | |
| bool | cloningPhase (StateP state, DemeP deme, std::vector< IndividualP > &clones) |
| bool | hypermutationPhase (StateP state, DemeP deme, std::vector< IndividualP > &clones) |
| bool | selectionPhase (StateP state, DemeP deme, std::vector< IndividualP > &clones) |
| bool | birthPhase (StateP state, DemeP deme, std::vector< IndividualP > &clones) |
| bool | replacePopulation (StateP state, DemeP deme, std::vector< IndividualP > &clones) |
| replace population with the contents of clones vector | |
Static Protected Member Functions | |
| static bool | sortPopulationByFitness (IndividualP ab1, IndividualP ab2) |
| sort vector of antibodies in regards to their fitness | |
| static bool | sortPopulationByParentAndFitness (IndividualP ab1, IndividualP ab2) |
| sort vector of antibodies first by their antibody parents and then by their fitness | |
Protected Attributes | |
| double | ubound |
| double | lbound |
| uint | dimension |
| bool | areGenotypesAdded_ |
| uint | n |
| number of antibodies cloned every generation | |
| double | beta |
| parameter which determines the number of clones for every antibody | |
| double | c |
| mutation parameter | |
| double | d |
| fraction of population regenerated every generation | |
| std::string | cloningVersion |
| specifies whether to use static or proportional cloning | |
| std::string | selectionScheme |
| specifies which selection scheme to use CLONALG1 or CLONALG2 | |
Detailed Description
Clonal Selection Algorithm (see e.g. http://en.wikipedia.org/wiki/Clonal_Selection_Algorithm).
This CLONALG implements:
- cloning Versions:
- static cloning : n of the best antibodies are cloned beta*populationSize times
- proportional cloning: number of clones per antibody is proportional to that ab's fitness
- inversely proportional hypermutation : better antibodies are mutated less
- selectionSchemes:
- CLONALG1 - at new generation each antibody will be substituded by the best individual of its set of beta*population clones
- CLONALG2 - new generation will be formed by the best (1-d)*populationSize clones ( or all if the number of clones is less than that )
- birthPhase: where d * populationSize of new antibodies are randomly created and added to the population for diversification.
CLONALG algorithm accepts only a single FloatingPoint genotype. Additionally, if chosen, selectionScheme CLONALG1 adds a FloatingPoint genotype (parentAntibody) to mark which clone came from which antibodies.
Definition at line 24 of file AlgClonalg.h.
Member Function Documentation
| bool Clonalg::advanceGeneration | ( | StateP | , | |
| DemeP | ||||
| ) | [virtual] |
Perform a single generation on a single deme.
Must be implemented by a specific algorithm class
Implements Algorithm.
Definition at line 123 of file AlgClonalg.cpp.
| bool Clonalg::initialize | ( | StateP | ) | [virtual] |
Initialize the algorithm, read parameters from the system, do a sanity check.
Called by the system before the algorithm starts (Algorithm::advanceGeneration)
Reimplemented from Algorithm.
Definition at line 33 of file AlgClonalg.cpp.
| void Clonalg::registerParameters | ( | StateP | ) | [virtual] |
Register algorithm's parameters (if any).
Called by the system before algorithm initialization (Algorithm::initialize)
Reimplemented from Algorithm.
Definition at line 16 of file AlgClonalg.cpp.
The documentation for this class was generated from the following files:
- D:/Projekt/ECF_trunk/ECF/AlgClonalg.h
- D:/Projekt/ECF_trunk/ECF/AlgClonalg.cpp
Generated on Tue Nov 4 2014 13:04:32 for ECF by
1.7.1