Index A | B | C | E | F | G | I | M | N | O | P | R | S | T | U | W A animate_mode() (ase_ga.soft_mutation.SoftMutation method) ase_ga.__init__ module ase_ga.cutandsplicepairing module ase_ga.element_crossovers module ase_ga.element_mutations module ase_ga.particle_crossovers module ase_ga.particle_mutations module ase_ga.population module ase_ga.slab_operators module, [1] ase_ga.soft_mutation module ase_ga.standardmutations module B BondElectroNegativityModel (class in ase_ga.soft_mutation) C CellBounds (class in ase.ga.utilities) chunks() (in module ase_ga.element_mutations) COM2surfPermutation (class in ase_ga.particle_mutations) count_looks_like() (in module ase_ga.population) cross() (ase_ga.cutandsplicepairing.CutAndSplicePairing method) Crossover (class in ase_ga.particle_crossovers) CutAndSplicePairing (class in ase.ga.cutandsplicepairing) (class in ase_ga.cutandsplicepairing) CutSpliceCrossover (class in ase_ga.particle_crossovers) CutSpliceSlabCrossover (class in ase_ga.slab_operators), [1] E ElementCrossover (class in ase_ga.element_crossovers) ElementMutation (class in ase_ga.element_mutations) F finalize_individual() (ase_ga.slab_operators.SlabOperator method), [1] FitnessSharingPopulation (class in ase_ga.population) FullElementMutation (class in ase_ga.element_mutations) G generate_unit_cell() (ase_ga.cutandsplicepairing.CutAndSplicePairing method) get_all_element_mutations() (ase_ga.slab_operators.SlabOperator method), [1] get_atomic_configuration() (ase_ga.particle_mutations.Mutation class method) get_core_indices() (ase_ga.particle_mutations.COM2surfPermutation class method) get_current_population() (ase_ga.population.Population method) get_list_of_possible_permutations() (ase_ga.particle_mutations.Mutation class method) get_mutation_index_list_and_choices() (ase_ga.element_mutations.ElementMutation method) get_new_individual() (ase_ga.cutandsplicepairing.CutAndSplicePairing method) (ase_ga.element_crossovers.ElementCrossover method) (ase_ga.element_crossovers.OnePointElementCrossover method) (ase_ga.element_crossovers.TwoPointElementCrossover method) (ase_ga.element_mutations.ElementMutation method) (ase_ga.element_mutations.FullElementMutation method) (ase_ga.element_mutations.MoveDownMutation method) (ase_ga.element_mutations.MoveLeftMutation method) (ase_ga.element_mutations.MoveRightMutation method) (ase_ga.element_mutations.MoveUpMutation method) (ase_ga.element_mutations.RandomElementMutation method) (ase_ga.particle_crossovers.CutSpliceCrossover method) (ase_ga.particle_mutations.COM2surfPermutation method) (ase_ga.particle_mutations.Poor2richPermutation method) (ase_ga.particle_mutations.RandomMutation method) (ase_ga.particle_mutations.RandomPermutation method) (ase_ga.particle_mutations.RandomSubstitute method) (ase_ga.particle_mutations.Rich2poorPermutation method) (ase_ga.particle_mutations.SymmetricSubstitute method) (ase_ga.slab_operators.CutSpliceSlabCrossover method), [1] (ase_ga.slab_operators.NeighborhoodElementMutation method), [1] (ase_ga.slab_operators.RandomCompositionMutation method), [1] (ase_ga.slab_operators.RandomElementMutation method), [1] (ase_ga.slab_operators.RandomSlabPermutation method), [1] (ase_ga.slab_operators.SymmetrySlabPermutation method), [1] (ase_ga.soft_mutation.SoftMutation method) (ase_ga.standardmutations.MirrorMutation method) (ase_ga.standardmutations.PermutationMutation method) (ase_ga.standardmutations.RattleMutation method) (ase_ga.standardmutations.RotationalMutation method) (ase_ga.standardmutations.StrainMutation method) get_nonrank() (ase_ga.population.MultiObjectivePopulation method) get_number_of_valence_electrons() (in module ase_ga.soft_mutation) get_numbers() (ase_ga.particle_crossovers.CutSpliceCrossover method) get_one_candidate() (ase_ga.population.Population method) (ase_ga.population.RandomPopulation method) get_population_after_generation() (ase_ga.population.Population method) get_raw_score() (in module ase_ga.__init__) get_row_column() (in module ase_ga.element_mutations) get_shell_indices() (ase_ga.particle_mutations.COM2surfPermutation class method) get_symbols_to_use() (ase_ga.slab_operators.SlabOperator method), [1] get_two_candidates() (ase_ga.population.FitnessSharingPopulation method) (ase_ga.population.Population method) (ase_ga.population.RandomPopulation method) (ase_ga.population.RankFitnessPopulation method) get_vectors_below_min_dist() (ase_ga.particle_crossovers.CutSpliceCrossover method) I is_uniform() (ase_ga.population.Population method) M mass_extinction() (ase_ga.population.Population method) mendeleiev_table() (in module ase_ga.element_mutations) minority_element_segregate() (in module ase_ga.slab_operators), [1] MirrorMutation (class in ase_ga.standardmutations) module ase_ga.__init__ ase_ga.cutandsplicepairing ase_ga.element_crossovers ase_ga.element_mutations ase_ga.particle_crossovers ase_ga.particle_mutations ase_ga.population ase_ga.slab_operators, [1] ase_ga.soft_mutation ase_ga.standardmutations MoveDownMutation (class in ase_ga.element_mutations) MoveLeftMutation (class in ase_ga.element_mutations) MoveRightMutation (class in ase_ga.element_mutations) MoveUpMutation (class in ase_ga.element_mutations) MultiObjectivePopulation (class in ase_ga.population) mutate() (ase_ga.particle_mutations.COM2surfPermutation class method) (ase_ga.particle_mutations.RandomMutation method) (ase_ga.particle_mutations.RandomPermutation class method) (ase_ga.soft_mutation.SoftMutation method) (ase_ga.standardmutations.MirrorMutation method) (ase_ga.standardmutations.PermutationMutation method) (ase_ga.standardmutations.RattleMutation method) (ase_ga.standardmutations.RotationalMutation method) (ase_ga.standardmutations.StrainMutation method) Mutation (class in ase_ga.particle_mutations) N NeighborhoodElementMutation (class in ase_ga.slab_operators), [1] O OFPComparator (class in ase.ga.ofp_comparator) OnePointElementCrossover (class in ase_ga.element_crossovers) P PairwiseHarmonicPotential (class in ase_ga.soft_mutation) PermuStrainMutation (class in ase.ga.standardmutations) (class in ase_ga.standardmutations) PermutationMutation (class in ase_ga.standardmutations) Poor2richPermutation (class in ase_ga.particle_mutations) Population (class in ase_ga.population) Positions (class in ase_ga.cutandsplicepairing) R random_vector() (ase_ga.particle_mutations.RandomMutation class method) RandomCompositionMutation (class in ase_ga.slab_operators), [1] RandomElementMutation (class in ase_ga.element_mutations) (class in ase_ga.slab_operators), [1] RandomMutation (class in ase_ga.particle_mutations) RandomPermutation (class in ase_ga.particle_mutations) RandomPopulation (class in ase_ga.population) RandomSlabPermutation (class in ase_ga.slab_operators), [1] RandomSubstitute (class in ase_ga.particle_mutations) RankFitnessPopulation (class in ase_ga.population) RattleMutation (class in ase_ga.standardmutations) RattleRotationalMutation (class in ase.ga.standardmutations) (class in ase_ga.standardmutations) read_used_modes() (ase_ga.soft_mutation.SoftMutation method) Rich2poorPermutation (class in ase_ga.particle_mutations) RotationalMutation (class in ase.ga.standardmutations) (class in ase_ga.standardmutations) S set_raw_score() (in module ase_ga.__init__) SlabOperator (class in ase_ga.slab_operators), [1] SoftMutation (class in ase.ga.soft_mutation) (class in ase_ga.soft_mutation) StartGenerator (class in ase.ga.startgenerator) StrainMutation (class in ase.ga.standardmutations) (class in ase_ga.standardmutations) substitute() (ase_ga.particle_mutations.RandomSubstitute method) (ase_ga.particle_mutations.SymmetricSubstitute method) SymmetricSubstitute (class in ase_ga.particle_mutations) SymmetrySlabPermutation (class in ase_ga.slab_operators), [1] T TagFilter (class in ase_ga.soft_mutation) to_use() (ase_ga.cutandsplicepairing.Positions method) TwoPointElementCrossover (class in ase_ga.element_crossovers) U update() (ase_ga.population.FitnessSharingPopulation method) (ase_ga.population.Population method) (ase_ga.population.RandomPopulation method) (ase_ga.population.RankFitnessPopulation method) update_scaling_volume() (ase_ga.cutandsplicepairing.CutAndSplicePairing method) (ase_ga.standardmutations.StrainMutation method) W write_used_modes() (ase_ga.soft_mutation.SoftMutation method)