Index

_

__init__() (alogos._grammar.data_structures.DerivationTree method) (alogos._grammar.data_structures.Grammar method) (alogos._grammar.data_structures.Node method) (alogos._grammar.data_structures.Symbol method) (alogos._grammar.Grammar method) (alogos._grammar.visualization.grammar_with_railroad.GrammarFigure method) (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) (alogos._optimization.ea.algorithm.EvolutionaryAlgorithm method) (alogos._optimization.ea.database.Database method) (alogos._optimization.ea.database.Deserializer method) (alogos._optimization.ea.EvolutionaryAlgorithm method) (alogos._optimization.ea.state.State method) (alogos._optimization.EvolutionaryAlgorithm method) (alogos._optimization.shared.evaluation.RobustCallable method) (alogos._utilities.database_management.Sqlite3Wrapper method) (alogos._utilities.parametrization.ParameterCollection method) (alogos.EvolutionaryAlgorithm method) (alogos.Grammar method) (alogos.systems._shared.representation.BaseIndividual method) (alogos.systems._shared.representation.BasePopulation method) (alogos.systems.cfggp.representation.Genotype method) (alogos.systems.cfggpst.representation.Genotype method) (alogos.systems.dsge.representation.Genotype method) (alogos.systems.ge.representation.Genotype method) (alogos.systems.pige.representation.Genotype method) (alogos.systems.whge.representation.Genotype method)

A

alogos module alogos._grammar module alogos._grammar.data_structures module alogos._grammar.generation module alogos._grammar.generation.language module alogos._grammar.normalization module alogos._grammar.normalization._shared module alogos._grammar.normalization.binary_choice module alogos._grammar.normalization.chomsky module alogos._grammar.normalization.greibach module alogos._grammar.parsing module alogos._grammar.parsing.io_with_regex module alogos._grammar.parsing.parsing_with_lark module alogos._grammar.visualization module alogos._grammar.visualization.grammar_with_railroad module alogos._grammar.visualization.tree_with_graphviz module alogos._optimization module alogos._optimization.ea module alogos._optimization.ea.algorithm module alogos._optimization.ea.database module alogos._optimization.ea.operators module alogos._optimization.ea.operators.generation_model module alogos._optimization.ea.operators.selection module alogos._optimization.ea.parameters module alogos._optimization.ea.plots module alogos._optimization.ea.reporting module alogos._optimization.ea.state module alogos._optimization.shared module alogos._optimization.shared.evaluation module alogos._utilities module alogos._utilities.argument_processing module alogos._utilities.database_management module alogos._utilities.operating_system module alogos._utilities.parametrization module alogos._utilities.times module alogos.exceptions module alogos.systems module alogos.systems._shared module alogos.systems._shared._cached_calculations module alogos.systems._shared.crossover module alogos.systems._shared.init_individual module alogos.systems._shared.init_population module alogos.systems._shared.init_tree module alogos.systems._shared.mapping module alogos.systems._shared.mutation module alogos.systems._shared.neighborhood module alogos.systems._shared.representation module alogos.systems.cfggp module alogos.systems.cfggp._parameters module alogos.systems.cfggp.crossover module alogos.systems.cfggp.init_individual module alogos.systems.cfggp.init_population module alogos.systems.cfggp.mapping module

alogos.systems.cfggp.mutation module alogos.systems.cfggp.neighborhood module alogos.systems.cfggp.representation module alogos.systems.cfggpst module alogos.systems.cfggpst._cached_calculations module alogos.systems.cfggpst._parameters module alogos.systems.cfggpst.crossover module alogos.systems.cfggpst.init_individual module alogos.systems.cfggpst.init_population module alogos.systems.cfggpst.mapping module alogos.systems.cfggpst.mutation module alogos.systems.cfggpst.neighborhood module alogos.systems.cfggpst.representation module alogos.systems.dsge module alogos.systems.dsge._cached_calculations module alogos.systems.dsge._parameters module alogos.systems.dsge.crossover module alogos.systems.dsge.init_individual module alogos.systems.dsge.init_population module alogos.systems.dsge.mapping module alogos.systems.dsge.mutation module alogos.systems.dsge.neighborhood module alogos.systems.dsge.repair module alogos.systems.dsge.representation module alogos.systems.ge module alogos.systems.ge._parameters module alogos.systems.ge.crossover module alogos.systems.ge.init_individual module alogos.systems.ge.init_population module alogos.systems.ge.mapping module alogos.systems.ge.mutation module alogos.systems.ge.neighborhood module alogos.systems.ge.representation module alogos.systems.pige module alogos.systems.pige._parameters module alogos.systems.pige.crossover module alogos.systems.pige.init_individual module alogos.systems.pige.init_population module alogos.systems.pige.mapping module alogos.systems.pige.mutation module alogos.systems.pige.neighborhood module alogos.systems.pige.representation module alogos.systems.whge module alogos.systems.whge._cached_calculations module alogos.systems.whge._parameters module alogos.systems.whge.crossover module alogos.systems.whge.init_individual module alogos.systems.whge.init_population module alogos.systems.whge.mapping module alogos.systems.whge.mutation module alogos.systems.whge.neighborhood module alogos.systems.whge.representation module alogos.warnings module

B

BaseGenotype (class in alogos.systems._shared.representation) BaseIndividual (class in alogos.systems._shared.representation) BasePopulation (class in alogos.systems._shared.representation)

bit_flip() (in module alogos.systems.whge.neighborhood) bit_flip_by_count() (in module alogos.systems.whge.mutation) bit_flip_by_probability() (in module alogos.systems.whge.mutation) bool_arg() (in module alogos._utilities.argument_processing)

C

calc_fit() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) calc_phe() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) callable_arg() (in module alogos._utilities.argument_processing) check_arg() (in module alogos._utilities.argument_processing) contains_nonterminal() (alogos._grammar.data_structures.Node method) contains_terminal() (alogos._grammar.data_structures.Node method) contains_unexpanded_nonterminal() (alogos._grammar.data_structures.Node method) copy() (alogos._grammar.data_structures.DerivationTree method) (alogos._grammar.data_structures.Grammar method) (alogos._grammar.data_structures.Node method) (alogos._grammar.data_structures.Symbol method) (alogos._grammar.Grammar method) (alogos.Grammar method) (alogos.systems._shared.representation.BaseGenotype method) (alogos.systems._shared.representation.BaseIndividual method) (alogos.systems._shared.representation.BasePopulation method) (alogos.systems.cfggp.representation.Genotype method) (alogos.systems.whge.representation.Genotype method)

create_directory() (in module alogos._utilities.operating_system) create_empty_terminal() (in module alogos._grammar.normalization._shared) create_graphviz_tree() (in module alogos._grammar.visualization) (in module alogos._grammar.visualization.tree_with_graphviz) create_new_nonterminal() (in module alogos._grammar.normalization._shared) create_syntax_diagram() (in module alogos._grammar.visualization) (in module alogos._grammar.visualization.grammar_with_railroad) cross_over() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) current_time_iso() (in module alogos._utilities.times) current_time_readable() (in module alogos._utilities.times) current_time_unix() (in module alogos._utilities.times)

D

Database (class in alogos._optimization.ea.database) DatabaseError DatabaseWarning default_evaluator() (in module alogos._optimization.shared.evaluation) default_parameters (in module alogos._optimization.ea.parameters) (in module alogos.systems.cfggp) (in module alogos.systems.cfggp._parameters) (in module alogos.systems.cfggpst) (in module alogos.systems.cfggpst._parameters) (in module alogos.systems.dsge) (in module alogos.systems.dsge._parameters) (in module alogos.systems.ge) (in module alogos.systems.ge._parameters) (in module alogos.systems.pige) (in module alogos.systems.pige._parameters) (in module alogos.systems.whge) (in module alogos.systems.whge._parameters)

delete_file() (in module alogos._utilities.operating_system) depth() (alogos._grammar.data_structures.DerivationTree method) derivation() (alogos._grammar.data_structures.DerivationTree method) DerivationTree (class in alogos._grammar.data_structures) DerivationTreeFigure (class in alogos._grammar.visualization.tree_with_graphviz) Deserializer (class in alogos._optimization.ea.database) details() (alogos._optimization.ea.database.Database method) (alogos._optimization.ea.database.Deserializer method) details_with_given_fitness() (alogos._optimization.ea.database.Database method) details_with_max_fitness() (alogos._optimization.ea.database.Database method) details_with_min_fitness() (alogos._optimization.ea.database.Database method) display() (alogos._grammar.visualization.grammar_with_railroad.GrammarFigure method) (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method)

E

ensure_file_extension() (in module alogos._utilities.argument_processing) (in module alogos._utilities.operating_system) ensure_new_path() (in module alogos._utilities.operating_system) ensure_no_file_extension() (in module alogos._utilities.argument_processing) EvolutionaryAlgorithm (class in alogos) (class in alogos._optimization) (class in alogos._optimization.ea) (class in alogos._optimization.ea.algorithm) execute_query() (alogos._utilities.database_management.Sqlite3Wrapper method) execute_query_for_many_records() (alogos._utilities.database_management.Sqlite3Wrapper method) execute_script() (alogos._utilities.database_management.Sqlite3Wrapper method) export_csv() (alogos._optimization.ea.database.Database method) (alogos._utilities.database_management.Sqlite3Wrapper method)

export_dot() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_eps() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_gv() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_html() (alogos._grammar.visualization.grammar_with_railroad.GrammarFigure method) (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_pdf() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_png() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_ps() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) export_sql() (alogos._optimization.ea.database.Database method) (alogos._utilities.database_management.Sqlite3Wrapper method) export_sql_text() (alogos._utilities.database_management.Sqlite3Wrapper method) export_svg() (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure method) expressive_powers() (in module alogos.systems.whge._cached_calculations)

F

fitness() (alogos._optimization.ea.database.Deserializer method) fitness_max() (alogos._optimization.ea.database.Database method) fitness_max_after_num_evals() (alogos._optimization.ea.database.Database method) fitness_min() (alogos._optimization.ea.database.Database method) fitness_min_after_num_evals() (alogos._optimization.ea.database.Database method) fitness_proportional() (in module alogos._optimization.ea.operators.selection) fitnesses() (alogos._optimization.ea.database.Database method) (alogos._optimization.ea.database.Deserializer method) fix_genotype() (in module alogos.systems.dsge.repair) flat_int_replacement_by_count() (in module alogos.systems._shared.mutation) flat_int_replacement_by_prob() (in module alogos.systems._shared.mutation) forward() (in module alogos.systems.cfggp.mapping) (in module alogos.systems.cfggpst.mapping) (in module alogos.systems.dsge.mapping) (in module alogos.systems.ge.mapping) (in module alogos.systems.pige.mapping) (in module alogos.systems.whge.mapping)

from_bnf_file() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) from_bnf_text() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) from_ebnf_file() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) from_ebnf_text() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) from_json() (alogos._grammar.data_structures.DerivationTree method) from_tuple() (alogos._grammar.data_structures.DerivationTree method)

G

gen_end() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) gen_to_phe_evaluations() (alogos._optimization.ea.database.Database method) gene_swap() (in module alogos.systems.dsge.crossover) genealogy() (in module alogos._optimization.ea.plots) generate_combinations() (in module alogos.systems._shared.neighborhood) generate_derivation() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) generate_derivation_tree() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) generate_language() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) (in module alogos._grammar.generation) (in module alogos._grammar.generation.language) generate_string() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) generation_first() (alogos._optimization.ea.database.Database method) generation_last() (alogos._optimization.ea.database.Database method) Genotype (class in alogos.systems.cfggp.representation) (class in alogos.systems.cfggpst.representation) (class in alogos.systems.dsge.representation) (class in alogos.systems.ge.representation) (class in alogos.systems.pige.representation) (class in alogos.systems.whge.representation) genotype() (alogos._optimization.ea.database.Deserializer method) GenotypeError genotypes() (alogos._optimization.ea.database.Database method) (alogos._optimization.ea.database.Deserializer method) genotypes_with_given_fitness() (alogos._optimization.ea.database.Database method) genotypes_with_max_fitness() (alogos._optimization.ea.database.Database method) genotypes_with_min_fitness() (alogos._optimization.ea.database.Database method) get_all_valid_codons() (in module alogos.systems.dsge._cached_calculations) get_data_per_table() (alogos._utilities.database_management.Sqlite3Wrapper method) get_derivation_tree() (in module alogos.systems._shared.mapping) get_first_valid_codon() (in module alogos.systems.dsge._cached_calculations) get_given_or_default() (in module alogos._utilities.parametrization) get_header_names() (alogos._utilities.database_management.Sqlite3Wrapper method) get_num_changes() (alogos._utilities.database_management.Sqlite3Wrapper method) get_random_valid_codon() (in module alogos.systems.dsge._cached_calculations) get_robust_fitness_function() (in module alogos._optimization.shared.evaluation) get_table_names() (alogos._utilities.database_management.Sqlite3Wrapper method) get_tree_depth() (in module alogos.systems.dsge._cached_calculations) get_version() (alogos._utilities.database_management.Sqlite3Wrapper method) get_view_names() (alogos._utilities.database_management.Sqlite3Wrapper method) given_derivation_tree() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) given_derivation_trees() (in module alogos.systems._shared.init_population) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population)

given_genotype() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) (in module alogos.systems.whge.init_individual) given_genotypes() (in module alogos.systems._shared.init_population) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population) (in module alogos.systems.whge.init_population) given_phenotype() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) given_phenotypes() (in module alogos.systems._shared.init_population) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population) gp_full_tree() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) gp_grow_tree() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) gp_rhh() (in module alogos.systems._shared.init_population) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population) Grammar (class in alogos) (class in alogos._grammar) (class in alogos._grammar.data_structures) GrammarError GrammarFigure (class in alogos._grammar.visualization.grammar_with_railroad) GrammarWarning greater_than() (alogos.systems._shared.representation.BaseIndividual method) grow_all_branches_to_max_depth() (in module alogos.systems._shared.init_tree) grow_all_branches_within_max_depth() (in module alogos.systems._shared.init_tree) grow_one_branch_to_max_depth() (in module alogos.systems._shared.init_tree) gt_phe_map() (alogos._optimization.ea.database.Deserializer method)

H

html_text (alogos._grammar.visualization.grammar_with_railroad.GrammarFigure property) (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure property) html_text_partial (alogos._grammar.visualization.grammar_with_railroad.GrammarFigure property) (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure property)

html_text_standalone (alogos._grammar.visualization.grammar_with_railroad.GrammarFigure property) (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure property)

I

idx_min_nodes_to_terminals() (in module alogos.systems._shared._cached_calculations) idx_production_rules() (in module alogos.systems.cfggpst._cached_calculations) import_sql() (alogos._optimization.ea.database.Database method) import_sql_evaluations() (alogos._optimization.ea.database.Database method) Individual (class in alogos.systems.cfggp.representation) (class in alogos.systems.cfggpst.representation) (class in alogos.systems.dsge.representation) (class in alogos.systems.ge.representation) (class in alogos.systems.pige.representation) (class in alogos.systems.whge.representation) individual() (alogos._optimization.ea.database.Deserializer method) individual_id() (alogos._optimization.ea.database.Deserializer method) individuals() (alogos._optimization.ea.database.Database method) (alogos._optimization.ea.database.Deserializer method) individuals_with_given_fitness() (alogos._optimization.ea.database.Database method) individuals_with_high_fitness() (alogos._optimization.ea.database.Database method) individuals_with_low_fitness() (alogos._optimization.ea.database.Database method) individuals_with_max_fitness() (alogos._optimization.ea.database.Database method) individuals_with_min_fitness() (alogos._optimization.ea.database.Database method) init_end() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) init_start() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) InitializationError

int_arg() (in module alogos._utilities.argument_processing) int_replacement() (in module alogos.systems.dsge.neighborhood) (in module alogos.systems.ge.neighborhood) (in module alogos.systems.pige.neighborhood) int_replacement_by_count() (in module alogos.systems.dsge.mutation) (in module alogos.systems.ge.mutation) (in module alogos.systems.pige.mutation) int_replacement_by_probability() (in module alogos.systems.dsge.mutation) (in module alogos.systems.ge.mutation) (in module alogos.systems.pige.mutation) internal_nodes() (alogos._grammar.data_structures.DerivationTree method) is_bcf() (in module alogos._grammar.normalization) (in module alogos._grammar.normalization.binary_choice) is_cnf() (in module alogos._grammar.normalization) (in module alogos._grammar.normalization.chomsky) is_completely_expanded() (alogos._grammar.data_structures.DerivationTree method) is_empty_terminal() (in module alogos._grammar.normalization._shared) is_gnf() (in module alogos._grammar.normalization) (in module alogos._grammar.normalization.greibach) is_recursive() (in module alogos.systems._shared._cached_calculations) is_stop_criterion_met() (alogos._optimization.ea.algorithm.EvolutionaryAlgorithm method) (alogos._optimization.ea.EvolutionaryAlgorithm method) (alogos._optimization.EvolutionaryAlgorithm method) (alogos.EvolutionaryAlgorithm method) items() (alogos._utilities.parametrization.ParameterCollection method)

K

keys() (alogos._utilities.parametrization.ParameterCollection method)

L

leaf_nodes() (alogos._grammar.data_structures.DerivationTree method)

less_than() (alogos.systems._shared.representation.BaseIndividual method) logical_xor() (in module alogos._utilities.argument_processing)

M

map_gen_phe() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) map_phe_fit() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) MappingError maps() (in module alogos.systems.dsge._cached_calculations) min_depths_to_terminals() (in module alogos.systems._shared._cached_calculations) min_expansions_to_terminals() (in module alogos.systems._shared._cached_calculations) min_nodes_to_terminals() (in module alogos.systems._shared._cached_calculations) MinimalReporter (class in alogos._optimization.ea.reporting) module alogos alogos._grammar alogos._grammar.data_structures alogos._grammar.generation alogos._grammar.generation.language alogos._grammar.normalization alogos._grammar.normalization._shared alogos._grammar.normalization.binary_choice alogos._grammar.normalization.chomsky alogos._grammar.normalization.greibach alogos._grammar.parsing alogos._grammar.parsing.io_with_regex alogos._grammar.parsing.parsing_with_lark alogos._grammar.visualization alogos._grammar.visualization.grammar_with_railroad alogos._grammar.visualization.tree_with_graphviz alogos._optimization alogos._optimization.ea alogos._optimization.ea.algorithm alogos._optimization.ea.database alogos._optimization.ea.operators alogos._optimization.ea.operators.generation_model alogos._optimization.ea.operators.selection alogos._optimization.ea.parameters alogos._optimization.ea.plots alogos._optimization.ea.reporting alogos._optimization.ea.state alogos._optimization.shared alogos._optimization.shared.evaluation alogos._utilities alogos._utilities.argument_processing alogos._utilities.database_management alogos._utilities.operating_system alogos._utilities.parametrization alogos._utilities.times alogos.exceptions alogos.systems alogos.systems._shared alogos.systems._shared._cached_calculations alogos.systems._shared.crossover alogos.systems._shared.init_individual alogos.systems._shared.init_population alogos.systems._shared.init_tree alogos.systems._shared.mapping alogos.systems._shared.mutation alogos.systems._shared.neighborhood alogos.systems._shared.representation alogos.systems.cfggp alogos.systems.cfggp._parameters alogos.systems.cfggp.crossover alogos.systems.cfggp.init_individual alogos.systems.cfggp.init_population alogos.systems.cfggp.mapping alogos.systems.cfggp.mutation alogos.systems.cfggp.neighborhood alogos.systems.cfggp.representation alogos.systems.cfggpst alogos.systems.cfggpst._cached_calculations alogos.systems.cfggpst._parameters alogos.systems.cfggpst.crossover alogos.systems.cfggpst.init_individual alogos.systems.cfggpst.init_population alogos.systems.cfggpst.mapping alogos.systems.cfggpst.mutation alogos.systems.cfggpst.neighborhood alogos.systems.cfggpst.representation alogos.systems.dsge alogos.systems.dsge._cached_calculations alogos.systems.dsge._parameters alogos.systems.dsge.crossover alogos.systems.dsge.init_individual alogos.systems.dsge.init_population alogos.systems.dsge.mapping alogos.systems.dsge.mutation alogos.systems.dsge.neighborhood alogos.systems.dsge.repair alogos.systems.dsge.representation alogos.systems.ge alogos.systems.ge._parameters alogos.systems.ge.crossover alogos.systems.ge.init_individual alogos.systems.ge.init_population alogos.systems.ge.mapping alogos.systems.ge.mutation alogos.systems.ge.neighborhood alogos.systems.ge.representation alogos.systems.pige alogos.systems.pige._parameters alogos.systems.pige.crossover alogos.systems.pige.init_individual alogos.systems.pige.init_population alogos.systems.pige.mapping alogos.systems.pige.mutation alogos.systems.pige.neighborhood alogos.systems.pige.representation alogos.systems.whge alogos.systems.whge._cached_calculations alogos.systems.whge._parameters alogos.systems.whge.crossover alogos.systems.whge.init_individual alogos.systems.whge.init_population alogos.systems.whge.mapping alogos.systems.whge.mutation alogos.systems.whge.neighborhood alogos.systems.whge.representation alogos.warnings

multiple_details() (alogos._optimization.ea.database.Deserializer method) mutate() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method)

N

NEWLINE (in module alogos._utilities.operating_system) Node (class in alogos._grammar.data_structures) nodes() (alogos._grammar.data_structures.DerivationTree method) non_overlapping() (in module alogos._optimization.ea.operators.generation_model) non_recursive_rhs() (in module alogos.systems.dsge._cached_calculations) NonterminalSymbol (class in alogos._grammar.data_structures) num_arg() (in module alogos._utilities.argument_processing) num_details() (alogos._optimization.ea.database.Database method) num_expansions() (alogos._grammar.data_structures.DerivationTree method) num_fitnesses() (alogos._optimization.ea.database.Database method)

num_gen_to_phe_evaluations() (alogos._optimization.ea.database.Database method) num_generations() (alogos._optimization.ea.database.Database method) num_genotypes() (alogos._optimization.ea.database.Database method) num_individuals() (alogos._optimization.ea.database.Database method) num_nodes() (alogos._grammar.data_structures.DerivationTree method) num_phe_to_fit_evaluations() (alogos._optimization.ea.database.Database method) num_phenotypes() (alogos._optimization.ea.database.Database method) num_unique_fitnesses (alogos.systems._shared.representation.BasePopulation property) num_unique_genotypes (alogos.systems._shared.representation.BasePopulation property) num_unique_phenotypes (alogos.systems._shared.representation.BasePopulation property)

O

open_in_webbrowser() (in module alogos._utilities.operating_system) OperatorError

OptimizationWarning overlapping() (in module alogos._optimization.ea.operators.generation_model)

P

ParameterCollection (class in alogos._utilities.parametrization) ParameterError parent_ids() (alogos._optimization.ea.database.Deserializer method) parse_string() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) (in module alogos._grammar.parsing) (in module alogos._grammar.parsing.parsing_with_lark) ParserError phe_fit_det_map() (alogos._optimization.ea.database.Deserializer method) phe_fit_map() (alogos._optimization.ea.database.Deserializer method) phe_to_fit_evaluations() (alogos._optimization.ea.database.Database method) phenotype() (alogos._optimization.ea.database.Deserializer method) phenotypes() (alogos._optimization.ea.database.Database method) (alogos._optimization.ea.database.Deserializer method) phenotypes_with_given_fitness() (alogos._optimization.ea.database.Database method) phenotypes_with_max_fitness() (alogos._optimization.ea.database.Database method) phenotypes_with_min_fitness() (alogos._optimization.ea.database.Database method) pi_grow_tree() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) pi_rhh() (in module alogos.systems._shared.init_population) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population)

plot() (alogos._grammar.data_structures.DerivationTree method) (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) plot_genealogy() (alogos._optimization.ea.database.Database method) Population (class in alogos.systems.cfggp.representation) (class in alogos.systems.cfggpst.representation) (class in alogos.systems.dsge.representation) (class in alogos.systems.ge.representation) (class in alogos.systems.pige.representation) (class in alogos.systems.whge.representation) population() (alogos._optimization.ea.database.Deserializer method) population_size_max() (alogos._optimization.ea.database.Database method) population_size_min() (alogos._optimization.ea.database.Database method) ptc2() (in module alogos.systems._shared.init_population) (in module alogos.systems._shared.init_tree) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population) ptc2_tree() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual)

R

random_genotype() (in module alogos.systems._shared.init_individual) (in module alogos.systems.cfggp.init_individual) (in module alogos.systems.cfggpst.init_individual) (in module alogos.systems.dsge.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) (in module alogos.systems.whge.init_individual) random_genotypes() (in module alogos.systems._shared.init_population) (in module alogos.systems.cfggp.init_population) (in module alogos.systems.cfggpst.init_population) (in module alogos.systems.dsge.init_population) (in module alogos.systems.ge.init_population) (in module alogos.systems.pige.init_population) (in module alogos.systems.whge.init_population) random_valid_genotype() (in module alogos.systems._shared.init_individual) (in module alogos.systems.ge.init_individual) (in module alogos.systems.pige.init_individual) rank_proportional() (in module alogos._optimization.ea.operators.selection) read_bnf() (in module alogos._grammar.parsing) (in module alogos._grammar.parsing.io_with_regex) read_ebnf() (in module alogos._grammar.parsing) (in module alogos._grammar.parsing.io_with_regex)

recognize_string() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) reset() (alogos._optimization.ea.algorithm.EvolutionaryAlgorithm method) (alogos._optimization.ea.EvolutionaryAlgorithm method) (alogos._optimization.EvolutionaryAlgorithm method) (alogos.EvolutionaryAlgorithm method) reverse() (in module alogos.systems.cfggp.mapping) (in module alogos.systems.cfggpst.mapping) (in module alogos.systems.dsge.mapping) (in module alogos.systems.ge.mapping) (in module alogos.systems.pige.mapping) RobustCallable (class in alogos._optimization.shared.evaluation) run() (alogos._optimization.ea.algorithm.EvolutionaryAlgorithm method) (alogos._optimization.ea.EvolutionaryAlgorithm method) (alogos._optimization.EvolutionaryAlgorithm method) (alogos.EvolutionaryAlgorithm method) run_end() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) runtime (alogos._optimization.ea.state.State property)

S

select_par() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) select_sur() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method) shortest_distances() (in module alogos.systems.whge._cached_calculations) Sqlite3Wrapper (class in alogos._utilities.database_management) start_time (alogos._optimization.ea.state.State property) State (class in alogos._optimization.ea.state) step() (alogos._optimization.ea.algorithm.EvolutionaryAlgorithm method) (alogos._optimization.ea.EvolutionaryAlgorithm method) (alogos._optimization.EvolutionaryAlgorithm method) (alogos.EvolutionaryAlgorithm method)

stop_time (alogos._optimization.ea.state.State property) str_arg() (in module alogos._utilities.argument_processing) string() (alogos._grammar.data_structures.DerivationTree method) subtree_exchange() (in module alogos.systems.cfggp.crossover) (in module alogos.systems.cfggpst.crossover) subtree_replacement() (in module alogos.systems.cfggp.mutation) (in module alogos.systems.cfggp.neighborhood) (in module alogos.systems.cfggpst.mutation) (in module alogos.systems.cfggpst.neighborhood) svg_text (alogos._grammar.visualization.tree_with_graphviz.DerivationTreeFigure property) Symbol (class in alogos._grammar.data_structures)

T

TerminalSymbol (class in alogos._grammar.data_structures) to_bcf() (in module alogos._grammar.normalization) (in module alogos._grammar.normalization.binary_choice) to_bnf_file() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) to_bnf_text() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) to_cnf() (in module alogos._grammar.normalization) (in module alogos._grammar.normalization.chomsky) to_columns() (alogos._optimization.ea.database.Database method) to_dataframe() (alogos._optimization.ea.database.Database method) to_ebnf_file() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method) to_ebnf_text() (alogos._grammar.data_structures.Grammar method) (alogos._grammar.Grammar method) (alogos.Grammar method)

to_gnf() (in module alogos._grammar.normalization) (in module alogos._grammar.normalization.greibach) to_jgf() (alogos._optimization.ea.database.Database method) to_json() (alogos._grammar.data_structures.DerivationTree method) to_list() (alogos._optimization.ea.database.Database method) to_network() (alogos._optimization.ea.database.Database method) to_parenthesis_notation() (alogos._grammar.data_structures.DerivationTree method) to_tree_notation() (alogos._grammar.data_structures.DerivationTree method) to_tuple() (alogos._grammar.data_structures.DerivationTree method) tokens() (alogos._grammar.data_structures.DerivationTree method) tournament() (in module alogos._optimization.ea.operators.selection) truncation() (in module alogos._optimization.ea.operators.selection) turn_off() (in module alogos.warnings) turn_on() (in module alogos.warnings) two_point_length_preserving() (in module alogos.systems._shared.crossover) (in module alogos.systems.ge.crossover) (in module alogos.systems.pige.crossover) (in module alogos.systems.whge.crossover)

U

uniform() (in module alogos._optimization.ea.operators.selection) (in module alogos.systems._shared.init_tree)

unix_timestamp_to_readable() (in module alogos._utilities.times) update_grammar_parts() (in module alogos._grammar.normalization._shared)

V

values() (alogos._utilities.parametrization.ParameterCollection method)

VerboseReporter (class in alogos._optimization.ea.reporting)

W

weighted() (in module alogos.systems._shared.init_tree) write() (alogos._optimization.ea.reporting.MinimalReporter method) (alogos._optimization.ea.reporting.VerboseReporter method)

write_bnf() (in module alogos._grammar.parsing) (in module alogos._grammar.parsing.io_with_regex) write_ebnf() (in module alogos._grammar.parsing) (in module alogos._grammar.parsing.io_with_regex)