biopython v1.71.0 Bio.GA.Selection.Diversity.DiversitySelection

Implement diversity selection.

Diversity selection is performed by trying to select individuals from the population that aren’t already in the new_population. A group of selected individuals is then subjected to selection using a passed selection routine.

If new individuals can not be selected, new individuals will be randomly generated and inserted into the population.

Link to this section Summary

Functions

__init__()

Initialize a diversity selector

_get_new_organism()

Get a new organism from old_pop that isn’t in new_pop

select()

Perform selection on the current population, encouraging diversity

Link to this section Functions

__init__()

Initialize a diversity selector.

Arguments:

internal_selector - A selection object that will be used to select individuals based on fitness, perform crossover, mutation and repair.
genome_generator - A function that, when called, will return a genome to be used for a new organism. The genome returned must be a MutableSeq() object.

_get_new_organism()

Get a new organism from old_pop that isn’t in new_pop.

This attempts to select an organism from old_pop that isn’t in new_pop. If we can’t do this in the number of tries specified by the class attribute random_tries, we generate a new random organism and return that.

select()

Perform selection on the current population, encouraging diversity.