Index

_

__exchange_multi_walker() (odatse.algorithm.exchange.Algorithm method) __exchange_single_walker() (odatse.algorithm.exchange.Algorithm method) __init__() (odatse._info.Info method) (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.exchange.Algorithm method) (odatse.algorithm.global_search.Algorithm method) (odatse.algorithm.mapper_mpi.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.min_search.Algorithm method) (odatse.algorithm.montecarlo.AlgorithmBase method) (odatse.algorithm.pamc.Algorithm method) (odatse.algorithm.random_search.Algorithm method) (odatse.algorithm.ttopt.Algorithm method) (odatse.domain._domain.DomainBase method) (odatse.domain.meshgrid.MeshGrid method) (odatse.domain.region.Region method) (odatse.solver._solver.SolverBase method) (odatse.solver.analytical.Solver method) (odatse.solver.function.Solver method) (odatse.util.data_writer.BaseWriter method) (odatse.util.data_writer.DataWriter method) (odatse.util.limitation.Inequality method) (odatse.util.limitation.LimitationBase method) (odatse.util.limitation.Unlimited method) (odatse.util.logger.Logger method) (odatse.util.mapping.Affine method) (odatse.util.neighborlist.Cells method) (odatse.util.resampling.BinarySearch method) (odatse.util.resampling.WalkerTable method) __init_rng() (odatse.algorithm._algorithm.AlgorithmBase method) _apply_state() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.exchange.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.montecarlo.AlgorithmBase method) (odatse.algorithm.pamc.Algorithm method) (odatse.algorithm.random_search.Algorithm method) (odatse.algorithm.ttopt.Algorithm method) _asdict() (odatse.util.separateT.Entry method) _calc_participation_ratio() (odatse.algorithm.pamc.Algorithm method) _check_continue() (odatse.algorithm.random_search.Algorithm method) _check_parameters() (odatse.algorithm._algorithm.AlgorithmBase method) _cleanup() (odatse._info.Info method) _clear_results() (in module odatse.util.separateT) _ClippedRandomDisplacement (class in odatse.algorithm.min_search) _compute_temperature_statistics() (in module odatse.util.separateT) _distribute_entries() (in module odatse.util.separateT) _evaluate() (odatse.algorithm.montecarlo.AlgorithmBase method) _exchange() (odatse.algorithm.exchange.Algorithm method) _extend_points() (odatse.algorithm.random_search.Algorithm method) _find_mesh_info() (odatse.algorithm.mapper_mpi.Algorithm method) _find_scheduling() (odatse.algorithm.pamc.Algorithm method) _gather_information() (odatse.algorithm.pamc.Algorithm method) _init_counters() (odatse.algorithm.ttopt.Algorithm method) _init_poi() (odatse.algorithm.ttopt.Algorithm method) _init_random() (odatse.domain.region.Region method) _initialize() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.exchange.Algorithm method) (odatse.algorithm.global_search.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.min_search.Algorithm method) (odatse.algorithm.montecarlo.AlgorithmBase method) (odatse.algorithm.pamc.Algorithm method) (odatse.algorithm.ttopt.Algorithm method)

_load_data() (odatse.algorithm._algorithm.AlgorithmBase method) _load_state() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.ttopt.Algorithm method) _make() (odatse.util.separateT.Entry class method) _merge_results() (in module odatse.util.separateT) _Method (class in odatse.algorithm.global_search) _output_results() (odatse.algorithm.global_search.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.min_search.Algorithm method) _parse_result_line() (in module odatse.util.separateT) _parse_version() (in module odatse.util.toml) _post() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.exchange.Algorithm method) (odatse.algorithm.global_search.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.min_search.Algorithm method) (odatse.algorithm.pamc.Algorithm method) (odatse.algorithm.ttopt.Algorithm method) _prepare() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.exchange.Algorithm method) (odatse.algorithm.global_search.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.min_search.Algorithm method) (odatse.algorithm.montecarlo.AlgorithmBase method) (odatse.algorithm.pamc.Algorithm method) (odatse.algorithm.ttopt.Algorithm method) _quasi_random_iterator() (odatse.algorithm.random_search.Algorithm method) _random_iterator() (odatse.algorithm.random_search.Algorithm method) _reach_consensus() (odatse.algorithm._algorithm.AlgorithmBase method) _read_mesh_file() (odatse.algorithm.mapper_mpi.Algorithm method) _read_result_T_entries() (in module odatse.util.separateT) _replace() (odatse.util.separateT.Entry method) _resample() (odatse.algorithm.pamc.Algorithm method) _resample_fixed() (odatse.algorithm.pamc.Algorithm method) _resample_varied() (odatse.algorithm.pamc.Algorithm method) _run() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.exchange.Algorithm method) (odatse.algorithm.global_search.Algorithm method) (odatse.algorithm.mapper_mpi_base.Algorithm method) (odatse.algorithm.min_search.Algorithm method) (odatse.algorithm.pamc.Algorithm method) (odatse.algorithm.ttopt.Algorithm method) _sample() (odatse.util.resampling.BinarySearch method) (odatse.util.resampling.WalkerTable method) _save_data() (odatse.algorithm._algorithm.AlgorithmBase method) _save_state() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.algorithm.bayes.Algorithm method) (odatse.algorithm.ttopt.Algorithm method) _save_stats() (odatse.algorithm.pamc.Algorithm method) _setup() (odatse.domain.meshgrid.MeshGrid method) (odatse.domain.region.Region method) _setup_from_file() (odatse.domain.meshgrid.MeshGrid method) _setup_grid() (odatse.domain.meshgrid.MeshGrid method) _setup_neighbour() (odatse.algorithm.state.DiscreteStateSpace method) _setup_structure() (odatse.algorithm.ttopt.Algorithm method) _show_parameters() (odatse.algorithm._algorithm.AlgorithmBase method) _wrap_pbc() (odatse.algorithm.state.ContinuousStateSpace method) _write() (odatse.util.data_writer.BaseWriter method) _write_entries_to_file() (in module odatse.util.separateT) _write_header() (odatse.util.data_writer.DataWriter method) _write_items() (odatse.util.data_writer.DataWriter method)

A

ackley() (in module odatse.solver.analytical) Affine (class in odatse.util.mapping) Algorithm (class in odatse.algorithm.bayes) (class in odatse.algorithm.exchange) (class in odatse.algorithm.global_search) (class in odatse.algorithm.mapper_mpi) (class in odatse.algorithm.mapper_mpi_base) (class in odatse.algorithm.min_search) (class in odatse.algorithm.pamc) (class in odatse.algorithm.random_search) (class in odatse.algorithm.ttopt)

AlgorithmBase (class in odatse.algorithm._algorithm) (class in odatse.algorithm.montecarlo) AlgorithmStatus (class in odatse.algorithm._algorithm) alpine() (in module odatse.solver.analytical) auto_range() (in module odatse.scripts.plt_model_evidence)

B

BaseWriter (class in odatse.util.data_writer) basicConfig() (odatse.util.data_writer.BaseWriter class method) bayes_max_num_probes (odatse.algorithm.bayes.Algorithm attribute) best_action (odatse.algorithm.bayes.Algorithm attribute)

best_fx (odatse.algorithm.bayes.Algorithm attribute) betas (odatse.algorithm.pamc.Algorithm attribute) BinarySearch (class in odatse.util.resampling) bounds (odatse.algorithm.ttopt.Algorithm attribute)

C

calc_log_pdb() (in module odatse.scripts.plt_model_evidence) calculate_statistics_from_separated_files() (in module odatse.util.separateT) cellcoord2cellindex() (odatse.util.neighborlist.Cells method) cellindex2cellcoord() (odatse.util.neighborlist.Cells method) Cells (class in odatse.util.neighborlist) cells (odatse.util.neighborlist.Cells attribute) cellsize (odatse.util.neighborlist.Cells attribute)

CheckpointError choose_algorithm() (in module odatse.algorithm) choose_solver() (in module odatse._main) cli() (in module odatse._main) ContinuousStateSpace (class in odatse.algorithm.state) coord2cellcoord() (odatse.util.neighborlist.Cells method) coord2cellindex() (odatse.util.neighborlist.Cells method) count() (odatse.util.logger.Logger method)

D

DataWriter (class in odatse.util.data_writer) dimension (odatse.util.neighborlist.Cells attribute) DiscreteStateSpace (class in odatse.algorithm.state)

do_separate() (in module odatse.scripts.separateT) do_split() (odatse.domain.meshgrid.MeshGrid method) DomainBase (class in odatse.domain._domain)

E

Entry (class in odatse.util.separateT) Error eval_history_buffer_rows (odatse.algorithm.ttopt.Algorithm attribute) evaluate() (odatse.solver._solver.SolverBase method) (odatse.solver.function.Solver method)

exchange_direction (odatse.algorithm.exchange.Algorithm attribute) exponential() (in module odatse.solver.analytical) extract_columns() (in module odatse.scripts.summarize_each_T) extract_tag() (in module odatse.scripts.extract_combined)

F

Ferrs (odatse.algorithm.pamc.Algorithm attribute) find_files() (in module odatse.scripts.plt_1D_histogram) (in module odatse.scripts.plt_2D_histogram) flatten_dict() (in module odatse.algorithm._algorithm) Fmeans (odatse.algorithm.pamc.Algorithm attribute) fopt (odatse.algorithm.ttopt.Algorithm attribute) from_dict() (odatse._info.Info method) (odatse.domain.meshgrid.MeshGrid class method) (odatse.util.limitation.Inequality class method) (odatse.util.mapping.Affine class method)

from_file() (odatse._info.Info class method) (odatse.domain.meshgrid.MeshGrid class method) fx (odatse.algorithm.exchange.Algorithm attribute) (odatse.algorithm.pamc.Algorithm attribute) (odatse.util.separateT.Entry attribute) fx_list (odatse.algorithm.bayes.Algorithm attribute)

G

get_results() (odatse.solver.function.Solver method)

griewank() (in module odatse.solver.analytical)

H

himmelblau() (in module odatse.solver.analytical)

I

Inequality (class in odatse.util.limitation) Info (class in odatse._info) init_points (odatse.algorithm.ttopt.Algorithm attribute) initial_list (odatse.domain.region.Region attribute) initialize() (in module odatse._initialize) (odatse.domain.region.Region method)

InputError interval (odatse.algorithm.bayes.Algorithm attribute) is_active() (odatse.util.logger.Logger method) is_bidirectional() (in module odatse.util.graph) is_connected() (in module odatse.util.graph) istep (odatse.algorithm.exchange.Algorithm attribute)

J

judge() (odatse.util.limitation.Inequality method) (odatse.util.limitation.LimitationBase method) (odatse.util.limitation.Unlimited method)

L

label_list (odatse.algorithm.bayes.Algorithm attribute) LimitationBase (class in odatse.util.limitation) linear_regression_test() (in module odatse.solver.analytical) load() (in module odatse.util.toml)

load_data() (in module odatse.scripts.plt_model_evidence) load_neighbor_list() (in module odatse.util.neighborlist) local_update() (odatse.algorithm.montecarlo.AlgorithmBase method) Logger (class in odatse.util.logger) logweights (odatse.algorithm.pamc.Algorithm attribute)

M

main() (in module odatse._main) (in module odatse.scripts.extract_combined) (in module odatse.scripts.plt_1D_histogram) (in module odatse.scripts.plt_2D_histogram) (in module odatse.scripts.plt_model_evidence) (in module odatse.scripts.separateT) (in module odatse.scripts.summarize_each_T) (in module odatse.util.neighborlist) (odatse.algorithm._algorithm.AlgorithmBase method) make_neighbor_list() (in module odatse.util.neighborlist) make_neighbor_list_cell() (in module odatse.util.neighborlist) make_neighbor_list_naive() (in module odatse.util.neighborlist) MappingBase (class in odatse.util.mapping) max_f_eval (odatse.algorithm.ttopt.Algorithm attribute) max_list (odatse.domain.region.Region attribute) maxs (odatse.util.neighborlist.Cells attribute) maxvol_max_it (odatse.algorithm.ttopt.Algorithm attribute) maxvol_tol (odatse.algorithm.ttopt.Algorithm attribute) mesh_list (odatse.algorithm.bayes.Algorithm attribute) MeshGrid (class in odatse.domain.meshgrid) michalewicz() (in module odatse.solver.analytical) min_list (odatse.domain.region.Region attribute) mins (odatse.util.neighborlist.Cells attribute) module odatse odatse.__main__ odatse._info odatse._initialize odatse._main odatse._runner odatse._version odatse.algorithm odatse.algorithm._algorithm odatse.algorithm._iterator odatse.algorithm.bayes odatse.algorithm.exchange odatse.algorithm.gather odatse.algorithm.global_search odatse.algorithm.mapper_mpi odatse.algorithm.mapper_mpi_base odatse.algorithm.min_search odatse.algorithm.montecarlo odatse.algorithm.pamc odatse.algorithm.random_search odatse.algorithm.state odatse.algorithm.ttopt odatse.domain odatse.domain._domain odatse.domain.meshgrid odatse.domain.region odatse.exception odatse.mpi odatse.scripts odatse.scripts.extract_combined odatse.scripts.plt_1D_histogram odatse.scripts.plt_2D_histogram odatse.scripts.plt_model_evidence odatse.scripts.separateT odatse.scripts.summarize_each_T odatse.solver odatse.solver._solver odatse.solver.analytical odatse.solver.function odatse.util odatse.util.data_writer odatse.util.graph odatse.util.limitation odatse.util.logger odatse.util.mapping odatse.util.neighborlist odatse.util.read_matrix odatse.util.read_ts odatse.util.resampling odatse.util.separateT odatse.util.toml odatse.util.version

N

name (odatse.solver._solver.SolverBase property) ncell (odatse.util.neighborlist.Cells attribute) neighborcells() (odatse.util.neighborlist.Cells method) nreplica (odatse.algorithm.exchange.Algorithm attribute) nreplicas (odatse.algorithm.pamc.Algorithm attribute)

Ns (odatse.util.neighborlist.Cells attribute) num_rand_basis (odatse.algorithm.bayes.Algorithm attribute) numsteps (odatse.algorithm.exchange.Algorithm attribute) numsteps_exchange (odatse.algorithm.exchange.Algorithm attribute) numsteps_thermalization (odatse.algorithm.exchange.Algorithm attribute)

O

odatse module odatse.__main__ module odatse._info module odatse._initialize module odatse._main module odatse._runner module odatse._version module odatse.algorithm module odatse.algorithm._algorithm module odatse.algorithm._iterator module odatse.algorithm.bayes module odatse.algorithm.exchange module odatse.algorithm.gather module odatse.algorithm.global_search module odatse.algorithm.mapper_mpi module odatse.algorithm.mapper_mpi_base module odatse.algorithm.min_search module odatse.algorithm.montecarlo module odatse.algorithm.pamc module odatse.algorithm.random_search module odatse.algorithm.state module odatse.algorithm.ttopt module odatse.domain module odatse.domain._domain module odatse.domain.meshgrid module odatse.domain.region module odatse.exception module

odatse.mpi module odatse.scripts module odatse.scripts.extract_combined module odatse.scripts.plt_1D_histogram module odatse.scripts.plt_2D_histogram module odatse.scripts.plt_model_evidence module odatse.scripts.separateT module odatse.scripts.summarize_each_T module odatse.solver module odatse.solver._solver module odatse.solver.analytical module odatse.solver.function module odatse.util module odatse.util.data_writer module odatse.util.graph module odatse.util.limitation module odatse.util.logger module odatse.util.mapping module odatse.util.neighborlist module odatse.util.read_matrix module odatse.util.read_ts module odatse.util.resampling module odatse.util.separateT module odatse.util.toml module odatse.util.version module OtherAlgorithmProcessError out_of_bound() (odatse.util.neighborlist.Cells method) output_dir (odatse.domain._domain.DomainBase attribute)

P

p_points (odatse.algorithm.ttopt.Algorithm attribute) param_list (odatse.algorithm.bayes.Algorithm attribute) parse_options() (in module odatse.scripts.plt_1D_histogram) (in module odatse.scripts.plt_2D_histogram) parse_version() (in module odatse.util.version)

plot_log_pdb() (in module odatse.scripts.plt_model_evidence) post() (odatse.algorithm._algorithm.AlgorithmBase method) prepare() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.solver.function.Solver method) (odatse.util.logger.Logger method) print_log_pdb() (in module odatse.scripts.plt_model_evidence)

Q

q_points (odatse.algorithm.ttopt.Algorithm attribute) qing() (in module odatse.solver.analytical)

quadratics() (in module odatse.solver.analytical) quartics() (in module odatse.solver.analytical)

R

r_max (odatse.algorithm.ttopt.Algorithm attribute) random_max_num_probes (odatse.algorithm.bayes.Algorithm attribute) rank_local (odatse.exception.Error attribute) rastrigin() (in module odatse.solver.analytical) read_matrix() (in module odatse.util.read_matrix) read_toml() (in module odatse.scripts.plt_1D_histogram) (in module odatse.scripts.plt_2D_histogram) (in module odatse.scripts.summarize_each_T) read_Ts() (in module odatse.util.read_ts)

read_vector() (in module odatse.util.read_matrix) Region (class in odatse.domain.region) rep2T (odatse.algorithm.exchange.Algorithm attribute) Resampler (class in odatse.util.resampling) reset() (odatse.util.resampling.BinarySearch method) (odatse.util.resampling.WalkerTable method) root_dir (odatse.domain._domain.DomainBase attribute) rosenbrock() (in module odatse.solver.analytical) run() (odatse.algorithm._algorithm.AlgorithmBase method) (odatse.solver.function.Solver method)

S

sample() (odatse.util.resampling.BinarySearch method) (odatse.util.resampling.WalkerTable method) save_eval_history (odatse.algorithm.ttopt.Algorithm attribute) schaffer() (in module odatse.solver.analytical) schwefel() (in module odatse.solver.analytical) score (odatse.algorithm.bayes.Algorithm attribute) separateT() (in module odatse.util.separateT) set_function() (odatse.solver.function.Solver method)

set_runner() (odatse.algorithm._algorithm.AlgorithmBase method) show_options() (in module odatse.scripts.plt_1D_histogram) (in module odatse.scripts.plt_2D_histogram) Solver (class in odatse.solver.analytical) (class in odatse.solver.function) SolverBase (class in odatse.solver._solver) StateSpace (class in odatse.algorithm.state) step (odatse.util.separateT.Entry attribute) store_file() (odatse.domain.meshgrid.MeshGrid method)

T

T2rep (odatse.algorithm.exchange.Algorithm attribute) TextWriter (class in odatse.util.data_writer) Tindex (odatse.algorithm.exchange.Algorithm attribute) (odatse.algorithm.pamc.Algorithm attribute)

TrivialMapping (class in odatse.util.mapping) Tstr (odatse.util.separateT.Entry attribute)

U

unit_list (odatse.domain.region.Region attribute)

Unlimited (class in odatse.util.limitation)

W

walker (odatse.util.separateT.Entry attribute) walker_ancestors (odatse.algorithm.pamc.Algorithm attribute) WalkerTable (class in odatse.util.resampling)

write() (odatse.util.logger.Logger method) write_neighbor_list() (in module odatse.util.neighborlist) write_timer() (odatse.algorithm._algorithm.AlgorithmBase method)

X

xopt (odatse.algorithm.bayes.Algorithm attribute) (odatse.algorithm.ttopt.Algorithm attribute)

xs (odatse.util.separateT.Entry attribute)