Method List
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#add_new_individual Biopsy::Generation
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#adjust_distributions_using_gradient Biopsy::TabuSearch
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#algorithm Biopsy::Experiment
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#all_settings Biopsy::Settings
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#archive_array Biopsy::Generation
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#archive_size Biopsy::SPEA2
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#archive_truncation Biopsy::ArchiveGeneration
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#backtrack Biopsy::TabuSearch
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#backtrack_cutoff Biopsy::TabuSearch
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#backtrack_or_continue Biopsy::TabuSearch
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#backtracks Biopsy::TabuSearch::Thread
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#base_dir Biopsy::Settings
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#best Biopsy::TabuSearch::Thread
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#best Biopsy::TabuSearch
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#best Biopsy::ParameterSweeper
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#best Biopsy::GeneticAlgorithm
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#best Biopsy::Generation
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#best Biopsy::Hood
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#best Biopsy::SPEA2
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#best_history Biopsy::TabuSearch::Thread
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#binary_tournament Biopsy::MatingHandler
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#camelize String
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#check_constructor Biopsy::Target
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#cleanup Biopsy::Experiment
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#combinations Biopsy::ParameterSweeper
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#constructor_path Biopsy::Target
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#count_parameter_permutations Biopsy::Target
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#create_tempdir Biopsy::Experiment
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#crossover Biopsy::Generation
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#crossover Biopsy::MatingHandler
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#current Biopsy::TabuSearch
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#current Biopsy::TabuSearch::Thread
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#current Biopsy::GeneticAlgorithm
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#current Biopsy::SPEA2
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#current_hood Biopsy::TabuSearch::Thread
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#deep_merge Hash
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#deep_symbolize Hash
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#define_neighbourhood_structure Biopsy::TabuSearch
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#density Biopsy::Individual
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#dimension_reduce Biopsy::ObjectiveHandler
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distance_between_points Biopsy::FitnessAssignment
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#distance_to_kth_point Biopsy::Individual
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distance_to_origin Biopsy::FitnessAssignment
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#distance_to_origin Biopsy::Individual
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#distributions Biopsy::TabuSearch::Thread
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#draw Biopsy::Distribution
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#essential_files FastestOptimum
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#essential_files Biopsy::ObjectiveFunction
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#fill_archive Biopsy::ArchiveGeneration
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find_distance_to_kth_point Biopsy::FitnessAssignment
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#finished? Biopsy::GeneticAlgorithm
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#finished? Biopsy::ParameterSweeper
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#finished? Biopsy::TabuSearch
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#finished? Biopsy::SPEA2
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#fitness Biopsy::Individual
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#further_archive_selection Biopsy::ArchiveGeneration
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#generateMutation Biopsy::Generation
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#generate_chromosome Biopsy::GeneticAlgorithm
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#generate_combinations Biopsy::ParameterSweeper
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#generate_distribution Biopsy::Distribution
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#generate_neighbour Biopsy::Hood
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#generate_parameters Biopsy::Target
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#generation_no Biopsy::GeneticAlgorithm
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#get_children_to_score Biopsy::SPEA2
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#get_homog Biopsy::GeneticAlgorithm
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#get_population Biopsy::Generation
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#get_population Biopsy::GeneticAlgorithm
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#gzip_intermediates Biopsy::Settings
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#homogeneous_test Biopsy::Generation
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#hood_no Biopsy::TabuSearch
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#initialize Biopsy::SPEA2
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#initialize Biopsy::GeneticAlgorithm
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#initialize Biopsy::Experiment
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#initialize Biopsy::TabuSearch
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#initialize Biopsy::Settings
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#initialize Biopsy::Hood
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#initialize Biopsy::MatingHandler
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#initialize Biopsy::Distribution
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#initialize Biopsy::ObjectiveHandler
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#initialize Biopsy::Individual
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#initialize Biopsy::ParameterSweeper
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#initialize Biopsy::Generation
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#inputs Biopsy::Experiment
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#is_tabu? Biopsy::Hood
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#iterations_since_best Biopsy::TabuSearch::Thread
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#jump_cutoff Biopsy::TabuSearch
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#keep_intermediates Biopsy::Settings
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#knows_starting_point? Biopsy::SPEA2
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#knows_starting_point? Biopsy::ParameterSweeper
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#knows_starting_point? Biopsy::TabuSearch
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#last? Biopsy::Generation
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#last? Biopsy::Hood
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#last_tempdir Biopsy::ObjectiveHandler
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#limit_sd Biopsy::Distribution
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#load Biopsy::Settings
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#load_by_name Biopsy::Target
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#load_constructor Biopsy::Target
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#load_next_thread Biopsy::TabuSearch
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#load_objectives Biopsy::ObjectiveHandler
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#load_target Biopsy::Experiment
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#loaded Biopsy::TabuSearch::Thread
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#locate_definition Biopsy::Target
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#locate_file Biopsy::Target
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#log Biopsy::TabuSearch
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#log_setup Biopsy::TabuSearch
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#log_teardown Biopsy::TabuSearch
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#loosen Biopsy::Distribution
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map_points_distance Biopsy::FitnessAssignment
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#mate Biopsy::MatingHandler
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#mating_process Biopsy::Generation
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#max_hood_size Biopsy::TabuSearch
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#mean Array
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#method_missing Biopsy::Target
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#mutation Biopsy::MatingHandler
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#name Biopsy::Target
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#next Biopsy::Hood
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#next_candidate Biopsy::TabuSearch
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#next_candidate Biopsy::GeneticAlgorithm
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#next_chromosome Biopsy::Generation
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#next_hood Biopsy::TabuSearch
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#objectives Biopsy::ObjectiveHandler
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#objectives_dir Biopsy::Settings
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#objectives_subset Biopsy::Settings
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#options Biopsy::Target
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#output Biopsy::Target
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#outputs Biopsy::Experiment
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#parameters Biopsy::Individual
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#parameters Biopsy::Target
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#populate Biopsy::Hood
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#population_array Biopsy::Generation
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#population_homogenosity Biopsy::Generation
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#population_size Biopsy::SPEA2
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#print_progress Biopsy::Experiment
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#probability_of_cross Biopsy::SPEA2
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#random_parameter_set Biopsy::SPEA2
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#random_start_point Biopsy::ParameterSweeper
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#random_start_point Biopsy::TabuSearch
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#random_start_point Biopsy::Experiment
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#raw_fitness Biopsy::Individual
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#recent_scores Biopsy::TabuSearch::Thread
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#recent_scores_combination_test Biopsy::TabuSearch
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#reproduce Biopsy::MatingHandler
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#respond_to? Biopsy::Target
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#retain_intermediates Biopsy::Experiment
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#run Biopsy::MatingHandler
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#run Biopsy::ObjectiveFunction
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#run Biopsy::ArchiveGeneration
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run Biopsy::FitnessAssignment
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#run Biopsy::Experiment
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#run FastestOptimum
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#run Biopsy::GeneticAlgorithm
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#run Biopsy::Target
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#run_for_output Biopsy::ObjectiveHandler
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#run_generation Biopsy::Generation
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#run_iteration Biopsy::Experiment
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#run_objective Biopsy::ObjectiveHandler
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#run_one_iteration Biopsy::SPEA2
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#run_one_iteration Biopsy::TabuSearch
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#run_one_iteration Biopsy::GeneticAlgorithm
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#run_one_iteration Biopsy::ParameterSweeper
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#run_one_mating_iteration Biopsy::SPEA2
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#save Biopsy::Settings
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#score Biopsy::Individual
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score_density Biopsy::FitnessAssignment
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#score_history Biopsy::TabuSearch::Thread
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score_raw_fitness Biopsy::FitnessAssignment
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#sd Biopsy::Distribution
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#sd_for_param Biopsy::TabuSearch
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#sd_increment_proportion Biopsy::TabuSearch
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#select_algorithm Biopsy::Experiment
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#select_mating_population Biopsy::MatingHandler
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#select_starting_point Biopsy::SPEA2
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#select_starting_point Biopsy::Experiment
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#select_starting_point Biopsy::TabuSearch
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#select_starting_point Biopsy::ParameterSweeper
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#selection_process Biopsy::Generation
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#set_defaults Biopsy::Settings
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#set_sd_min Biopsy::Distribution
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#setup Biopsy::TabuSearch
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#setup Biopsy::ParameterSweeper
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#setup Biopsy::SPEA2
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#setup_threads Biopsy::TabuSearch
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#shortname Biopsy::Target
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#standard_deviations Biopsy::TabuSearch::Thread
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#start Biopsy::Experiment
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#starting_sd_divisor Biopsy::TabuSearch
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#store_config Biopsy::Target
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#sweep_cutoff Biopsy::Settings
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#sym_to_ivar_sym Biopsy::TabuSearch
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#tabu Biopsy::TabuSearch::Thread
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#target Biopsy::Experiment
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#target_dir Biopsy::Settings
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#tighten Biopsy::Distribution
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#to_s Biopsy::Settings
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#update_best? Biopsy::Generation
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#update_best? Biopsy::Hood
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#update_best? Biopsy::TabuSearch
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#update_best? Biopsy::SPEA2
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#update_best? Biopsy::GeneticAlgorithm
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#update_best? Biopsy::ParameterSweeper
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#update_distribution Biopsy::TabuSearch
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#update_ga Biopsy::GeneticAlgorithm
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#update_neighbourhood_structure Biopsy::TabuSearch
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#update_recent_scores Biopsy::TabuSearch
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#valid_ruby? Biopsy::Target
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which File
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#write_data Biopsy::TabuSearch