This type describes the chromosome object. Chromosome consists of an array of alleles and a descriptive string label. See "the genome structure" for as general description and "chromosome" for details. More...

Collaboration diagram for the_genome::chromosome:

Public Member Functions
procedure, public	init_chromosome => chromosome_init_allocate_random
	This subroutine initialises the chromosome with, and allocates, random alleles, sets one of them randomly dominant and optionally defines the chromosome label. See `the_genome::chromosome_init_allocate_random()` More...

procedure, public	create_chromosome => chromosome_create_allocate_zero
	Init a new chromosome, zero, non-random. See `the_genome::chromosome_create_allocate_zero()` More...

procedure, public	recalc_rank_id => chromosome_recalculate_rank_ids
	This subroutine recalculates rank_id indices for consecutive gene objects within the chromosome. This may be necessary after reordering by random relocation mutation. See `the_genome::chromosome_recalculate_rank_ids()` More...

procedure, public	mutate_swap => chromosome_mutate_relocate_swap_random
	mutate within the same chromosome, relocate a gene (unit of alleles) to a different random position within the same chromosome, the misplaced gene moves to the relocated gene position, so they are just swap. See `the_genome::chromosome_mutate_relocate_swap_random()` More...

procedure, public	mutate_shift => chromosome_mutate_relocate_shift_random
	Mutate within the same chromosome, relocate a gene (unit of alleles) to a different random position within the same chromosome, shifting all other genes within the chromosome down one position. This works as follows: first, we randomly determine the gene to relocate, assign it a new random rank_id. Then re-sort the chromosome according to the new ranks with `qsort` with the `qs_partition_rank_id` backend. See `the_genome::chromosome_mutate_relocate_shift_random()` More...

procedure, public	sort_rank_id => chromosome_sort_rank_id
	Sort GENE objects within the CHROMOSOME by their rank_id The two subroutines below are a variant of the recursive quick-sort algorithm adapted for sorting integer components of the the `CHROMOSOME` object. See `the_genome::chromosome_sort_rank_id()` More...

Public Attributes
character(len=label_length)	chromosome_label
	chromosome label More...

integer	clength
	chromosome length, i.e. N of alleles here More...

type(gene), dimension(:), allocatable	allele
	array of alleles of the size `clength` More...

Detailed Description

This type describes the chromosome object. Chromosome consists of an array of alleles and a descriptive string label. See "the genome structure" for as general description and "chromosome" for details.

Definition at line 110 of file m_genome.f90.

Member Function/Subroutine Documentation

◆ init_chromosome()

procedure, public the_genome::chromosome::init_chromosome

This subroutine initialises the chromosome with, and allocates, random alleles, sets one of them randomly dominant and optionally defines the chromosome label. See the_genome::chromosome_init_allocate_random()

Definition at line 122 of file m_genome.f90.

◆ create_chromosome()

procedure, public the_genome::chromosome::create_chromosome

Init a new chromosome, zero, non-random. See the_genome::chromosome_create_allocate_zero()

Definition at line 125 of file m_genome.f90.

◆ recalc_rank_id()

procedure, public the_genome::chromosome::recalc_rank_id

This subroutine recalculates rank_id indices for consecutive gene objects within the chromosome. This may be necessary after reordering by random relocation mutation. See the_genome::chromosome_recalculate_rank_ids()

Definition at line 130 of file m_genome.f90.

◆ mutate_swap()

procedure, public the_genome::chromosome::mutate_swap

mutate within the same chromosome, relocate a gene (unit of alleles) to a different random position within the same chromosome, the misplaced gene moves to the relocated gene position, so they are just swap. See the_genome::chromosome_mutate_relocate_swap_random()

Definition at line 135 of file m_genome.f90.

◆ mutate_shift()

procedure, public the_genome::chromosome::mutate_shift

Mutate within the same chromosome, relocate a gene (unit of alleles) to a different random position within the same chromosome, shifting all other genes within the chromosome down one position. This works as follows: first, we randomly determine the gene to relocate, assign it a new random rank_id. Then re-sort the chromosome according to the new ranks with qsort with the qs_partition_rank_id backend. See the_genome::chromosome_mutate_relocate_shift_random()

Definition at line 143 of file m_genome.f90.

◆ sort_rank_id()

procedure, public the_genome::chromosome::sort_rank_id

Sort GENE objects within the CHROMOSOME by their rank_id The two subroutines below are a variant of the recursive quick-sort algorithm adapted for sorting integer components of the the CHROMOSOME object. See the_genome::chromosome_sort_rank_id()

Definition at line 149 of file m_genome.f90.

Member Data Documentation

◆ chromosome_label

character(len=label_length) the_genome::chromosome::chromosome_label

chromosome label

Definition at line 112 of file m_genome.f90.

◆ clength

integer the_genome::chromosome::clength

chromosome length, i.e. N of alleles here

Definition at line 114 of file m_genome.f90.

◆ allele

type(gene), dimension(:), allocatable the_genome::chromosome::allele

array of alleles of the size clength

Definition at line 116 of file m_genome.f90.

The documentation for this type was generated from the following file:

m_genome.f90

Public Member Functions

Public Attributes