Index A | B | C | D | E | F | G | I | K | L | M | N | P | Q | R | S | T | U | W | Z A add_edge() (eon.movie.Graph method) add_node() (eon.movie.Graph method) add_process() (eon.akmcstate.AKMCState method) (eon.prstate.PRState method) (eon.state.State method) add_row() (eon.fileio.Table method) add_state() (eon.basinhopping.BHStates method) akmc() (in module eon.akmc) AKMCState (class in eon.akmcstate) AKMCStateList (class in eon.akmcstatelist) alphanum_key() (in module eon.communicator) append() (eon.atoms.Atoms method) (eon.fileio.Dynamics method) append_modified_process_table() (eon.askmc.ASKMC method) append_process_table() (eon.akmcstate.AKMCState method) (eon.prstate.PRState method) append_sb() (eon.fileio.Dynamics method) append_search_result() (eon.akmcstate.AKMCState method) append_state_table() (eon.statelist.StateList method) aquirelock() (eon.locking.LockFile method) ASKMC (class in eon.askmc) Atoms (class in eon.atoms) B basinhopping() (in module eon.basinhopping) BHStates (class in eon.basinhopping) box_to_length_angle() (in module eon.fileio) brute_neighbor_list() (in module eon.atoms) build_result() (eon.explorer.ProcessSearch method) C c_mcamc() (in module eon.mcamc.mcamc) cancel_state() (eon.communicator.Communicator method) (eon.communicator.Local method) (eon.communicator.MPI method) (eon.communicator.Script method) check_command() (eon.communicator.Script method) check_job() (eon.communicator.Local method) cleanup() (eon.communicator.Local method) ClientMinModeExplorer (class in eon.explorer) cna() (in module eon.atoms) cnar() (in module eon.atoms) cnat() (in module eon.atoms) Communicator (class in eon.communicator) CommunicatorError compile_process_table() (eon.askmc.ASKMC method) config (in module eon.config) ConfigClass (class in eon.config) ConfigKey (class in eon.config) ConfigSection (class in eon.config) connect_state_sets() (eon.akmcstatelist.AKMCStateList method) connect_states() (eon.akmcstatelist.AKMCStateList method) contains_state() (eon.superbasin.Superbasin method) coordination_numbers() (in module eon.atoms) copy() (eon.atoms.Atoms method) D delete() (eon.superbasin.Superbasin method) delete_row() (eon.fileio.Table method) delete_row_func() (eon.fileio.Table method) dijkstra() (eon.movie.Graph method) Displace (class in eon.displace) DisplaceError DisplacementManager (class in eon.displace) dot() (eon.movie.Graph method) (in module eon.movie) Dynamics (class in eon.fileio) dynamics() (in module eon.movie) E edgelist_to_statelist() (eon.askmc.ASKMC method) elements (in module eon.atoms) EnergyLevel (class in eon.superbasinscheme) eon module eon.akmc module eon.akmcstate module eon.akmcstatelist module eon.askmc module eon.atoms module eon.basinhopping module eon.communicator module eon.config module eon.displace module eon.eon_kdb module eon.escaperate module eon.explorer module eon.fileio module eon.locking module eon.mcamc module eon.mcamc.mcamc module eon.mcamc.test module eon.movie module eon.mpiwait module eon.parallelreplica module eon.prstate module eon.prstatelist module eon.recycling module eon.server module eon.state module eon.statelist module eon.superbasin module eon.superbasinscheme module EONClientError estimate_condition() (in module eon.mcamc.mcamc) explore() (eon.explorer.MinModeExplorer method) (eon.explorer.ServerMinModeExplorer method) Explorer (class in eon.explorer) F fastest_path() (in module eon.movie) filter_epicenters() (eon.displace.Displace method) find_repeat() (eon.akmcstate.AKMCState method) find_row() (eon.fileio.Table method) find_value() (eon.fileio.Table method) finish_minimization() (eon.explorer.ProcessSearch method) finish_search() (eon.explorer.ProcessSearch method) free_r() (eon.atoms.Atoms method) G generate_corresponding_states() (eon.recycling.SB_Recycling method) generate_displacement() (eon.explorer.MinModeExplorer method) get() (eon.fileio.Dynamics method) (eon.fileio.ini method) get_akmc_metadata() (in module eon.akmc) get_askmc_metadata() (eon.askmc.ASKMC method) get_bad_saddle_count() (eon.akmcstate.AKMCState method) get_bundle_size() (eon.communicator.Communicator method) get_column() (eon.fileio.Table method) get_communicator() (in module eon.communicator) get_confidence() (eon.akmcstate.AKMCState method) (eon.superbasin.Superbasin method) get_containing_superbasin() (eon.superbasinscheme.SuperbasinScheme method) get_count() (eon.superbasinscheme.TransitionCounting method) get_displacement() (eon.displace.Displace method) (eon.displace.Water method) get_energy() (eon.state.State method) get_energy_increment() (eon.superbasinscheme.EnergyLevel method) get_fastest_process_id() (in module eon.movie) get_fastest_process_rate() (in module eon.movie) get_good_saddle_count() (eon.akmcstate.AKMCState method) get_job() (eon.explorer.ProcessSearch method) get_lowest_barrier() (eon.akmcstate.AKMCState method) get_lowest_confidence_state() (eon.superbasin.Superbasin method) get_mappings() (in module eon.atoms) get_minmodexplorer() (in module eon.explorer) get_modified_process_table() (eon.askmc.ASKMC method) get_moved_indices() (eon.recycling.Recycling method) get_num_procs() (eon.state.State method) get_num_states() (eon.statelist.StateList method) get_number_in_progress() (eon.communicator.Local method) (eon.communicator.MPI method) (eon.communicator.Script method) get_number_of_searches() (eon.akmcstate.AKMCState method) get_pr_metadata() (in module eon.escaperate) (in module eon.parallelreplica) get_previous_state() (eon.state.State method) get_prng_state() (in module eon.fileio) get_proc_random_count() (eon.akmcstate.AKMCState method) get_process() (eon.state.State method) get_process_atoms() (in module eon.atoms) get_process_id() (eon.askmc.ASKMC method) (eon.recycling.SB_Recycling method) get_process_ids() (eon.state.State method) get_process_mode() (eon.akmcstate.AKMCState method) get_process_product() (eon.akmcstate.AKMCState method) (eon.state.State method) get_process_reactant() (eon.akmcstate.AKMCState method) (eon.state.State method) get_process_saddle() (eon.akmcstate.AKMCState method) get_process_table() (eon.akmcstate.AKMCState method) (eon.state.State method) get_product_state() (eon.statelist.StateList method) get_queue_size() (eon.communicator.Communicator method) (eon.communicator.Local method) (eon.communicator.MPI method) (eon.communicator.Script method) get_queued_jobs() (eon.communicator.Script method) get_random_minimum() (eon.basinhopping.BHStates method) get_ratetable() (eon.akmcstate.AKMCState method) (eon.askmc.ASKMC method) get_reactant() (eon.state.State method) get_ready_ranks() (eon.communicator.MPI method) get_real_process_table() (eon.askmc.ASKMC method) get_relevant_procids() (eon.akmcstate.AKMCState method) get_repeats() (eon.akmcstate.AKMCState method) get_results() (eon.communicator.Communicator method) (eon.communicator.Local method) (eon.communicator.MPI method) (eon.communicator.Script method) get_rotation_matrix() (in module eon.atoms) get_row() (eon.fileio.Table method) get_rows() (eon.fileio.Table method) get_saddle() (eon.explorer.ProcessSearch method) get_saddle_file() (eon.explorer.ProcessSearch method) get_state() (eon.statelist.StateList method) get_statelist() (eon.superbasinscheme.EnergyLevel method) (in module eon.akmc) (in module eon.escaperate) (in module eon.parallelreplica) get_superbasin_scheme() (in module eon.akmc) get_time() (eon.akmcstate.AKMCState method) (eon.prstate.PRState method) get_time_by_temp() (eon.akmcstate.AKMCState method) get_total_saddle_count() (eon.akmcstate.AKMCState method) get_trajectory() (in module eon.movie) get_unique_saddle_count() (eon.akmcstate.AKMCState method) getboolean() (eon.fileio.ini method) getfloat() (eon.fileio.ini method) getint() (eon.fileio.ini method) Graph (class in eon.movie) guess_precision() (in module eon.mcamc.mcamc) I identical() (in module eon.atoms) in_array() (eon.askmc.ASKMC method) inc_proc_random_count() (eon.akmcstate.AKMCState method) inc_repeats() (eon.akmcstate.AKMCState method) inc_time() (eon.prstate.PRState method) increment_time() (eon.akmcstate.AKMCState method) ini (class in eon.fileio) init() (eon.config.ConfigClass method) (eon.displace.Undercoordinated method) (eon.fileio.Table method) insert() (in module eon.eon_kdb) internal_motion() (in module eon.atoms) is_equal() (eon.askmc.ASKMC method) islocked() (eon.locking.LockFile method) K kmc_step() (in module eon.akmc) L lambertw() (in module eon.akmcstate) least_coordinated() (in module eon.atoms) Leastcoordinated (class in eon.displace) length_angle_to_box() (in module eon.fileio) libpath (in module eon.mcamc.mcamc) ListedAtoms (class in eon.displace) ListedTypes (class in eon.displace) load_mode() (in module eon.fileio) load_potfiles() (in module eon.fileio) load_process_table() (eon.akmcstate.AKMCState method) (eon.prstate.PRState method) load_result() (eon.explorer.ProcessSearch method) load_state_table() (eon.statelist.StateList method) load_wuid() (eon.explorer.Explorer method) loadcon() (in module eon.fileio) loadcons() (in module eon.fileio) loadposcar() (in module eon.fileio) loadposcars() (in module eon.fileio) Local (class in eon.communicator) LockFile (class in eon.locking) locsearch() (eon.askmc.ASKMC method) logger (in module eon.akmc) (in module eon.akmcstate) (in module eon.akmcstatelist) (in module eon.askmc) (in module eon.atoms) (in module eon.basinhopping) (in module eon.communicator) (in module eon.displace) (in module eon.eon_kdb) (in module eon.escaperate) (in module eon.explorer) (in module eon.fileio) (in module eon.mcamc.mcamc) (in module eon.mpiwait) (in module eon.parallelreplica) (in module eon.prstate) (in module eon.prstatelist) (in module eon.state) (in module eon.statelist) (in module eon.superbasin) (in module eon.superbasinscheme) M main() (in module eon.akmc) (in module eon.basinhopping) (in module eon.escaperate) (in module eon.mcamc.test) (in module eon.parallelreplica) make_basin() (eon.superbasinscheme.SuperbasinScheme method) make_basin_from_sets() (eon.superbasinscheme.SuperbasinScheme method) make_bundles() (eon.communicator.Communicator method) make_displacement() (eon.displace.Displace method) (eon.displace.DisplacementManager method) (eon.displace.Leastcoordinated method) (eon.displace.ListedAtoms method) (eon.displace.ListedTypes method) (eon.displace.NotFCCorHCP method) (eon.displace.NotTCP method) (eon.displace.NotTCPorBCC method) (eon.displace.Random method) (eon.displace.Undercoordinated method) (eon.displace.Water method) make_graph() (in module eon.movie) make_jobs() (eon.explorer.ClientMinModeExplorer method) (eon.explorer.ServerMinModeExplorer method) make_movie() (in module eon.movie) make_searches() (in module eon.basinhopping) (in module eon.escaperate) (in module eon.parallelreplica) make_suggestion() (eon.recycling.Recycling method) (eon.recycling.SB_Recycling method) (in module eon.eon_kdb) match() (in module eon.atoms) max_row() (eon.fileio.Table method) max_value() (eon.fileio.Table method) min_row() (eon.fileio.Table method) min_value() (eon.fileio.Table method) MinModeExplorer (class in eon.explorer) missed_connections() (eon.askmc.ASKMC method) missed_low_barriers() (eon.askmc.ASKMC method) mod_processtable_head_fmt (in module eon.askmc) mod_processtable_header (in module eon.askmc) modify_config() (in module eon.fileio) module eon eon.akmc eon.akmcstate eon.akmcstatelist eon.askmc eon.atoms eon.basinhopping eon.communicator eon.config eon.displace eon.eon_kdb eon.escaperate eon.explorer eon.fileio eon.locking eon.mcamc eon.mcamc.mcamc eon.mcamc.test eon.movie eon.mpiwait eon.parallelreplica eon.prstate eon.prstatelist eon.recycling eon.server eon.state eon.statelist eon.superbasin eon.superbasinscheme MPI (class in eon.communicator) mpiwait() (in module eon.mpiwait) N neighbor_list() (in module eon.atoms) neighbor_list_vectors() (in module eon.atoms) neighbors() (eon.movie.Graph method) nodes() (eon.movie.Graph method) not_HCP_or_FCC() (in module eon.atoms) not_TCP() (in module eon.atoms) not_TCP_or_BCC() (in module eon.atoms) NotFCCorHCP (class in eon.displace) NotImplementedError, [1] NotTCP (class in eon.displace) NotTCPorBCC (class in eon.displace) np_mcamc() (in module eon.mcamc.mcamc) numElements (in module eon.atoms) P parallelreplica() (in module eon.escaperate) (in module eon.parallelreplica) parse_results() (in module eon.fileio) pbc() (in module eon.atoms) per_atom_norm() (in module eon.atoms) per_atom_norm_gen() (in module eon.atoms) point_energy_match() (in module eon.atoms) points_energies_match() (in module eon.atoms) priorityDictionary (class in eon.movie) proc_mode_path() (eon.akmcstate.AKMCState method) proc_product_path() (eon.state.State method) proc_reactant_path() (eon.state.State method) proc_results_path() (eon.state.State method) proc_saddle_path() (eon.akmcstate.AKMCState method) proc_stdout_path() (eon.state.State method) process_result() (eon.explorer.ProcessSearch method) processes() (in module eon.movie) ProcessSearch (class in eon.explorer) processtable_head_fmt (eon.akmcstate.AKMCState attribute) (eon.prstate.PRState attribute) (in module eon.askmc) processtable_header (eon.akmcstate.AKMCState attribute) (eon.prstate.PRState attribute) (in module eon.askmc) processtable_line (eon.akmcstate.AKMCState attribute) (eon.prstate.PRState attribute) (in module eon.askmc) PRState (class in eon.prstate) PRStateList (class in eon.prstatelist) Q query() (in module eon.eon_kdb) QUIT (in module eon.mpiwait) R raiseup() (eon.askmc.ASKMC method) Random (class in eon.displace) random_chain() (in module eon.mcamc.test) RateThreshold (class in eon.superbasinscheme) read() (eon.fileio.ini method) (eon.fileio.Table method) read_data() (eon.superbasin.Superbasin method) (eon.superbasinscheme.EnergyLevel method) (eon.superbasinscheme.RateThreshold method) (eon.superbasinscheme.SuperbasinScheme method) (eon.superbasinscheme.TransitionCounting method) read_metadata() (eon.recycling.SB_Recycling method) read_recycling_metadata() (eon.recycling.Recycling method) Recycling (class in eon.recycling) register_bad_saddle() (eon.akmcstate.AKMCState method) register_process() (eon.akmcstatelist.AKMCStateList method) (eon.prstatelist.PRStateList method) register_results() (eon.explorer.ClientMinModeExplorer method) (eon.explorer.ServerMinModeExplorer method) (in module eon.basinhopping) (in module eon.escaperate) (in module eon.parallelreplica) register_transition() (eon.askmc.ASKMC method) (eon.superbasinscheme.EnergyLevel method) (eon.superbasinscheme.RateThreshold method) (eon.superbasinscheme.SuperbasinScheme method) (eon.superbasinscheme.TransitionCounting method) removelock() (eon.locking.LockFile method) reset_repeats() (eon.akmcstate.AKMCState method) rot_match() (in module eon.atoms) rotate() (in module eon.atoms) rotate_water() (eon.displace.Water static method) rotm() (in module eon.atoms) run_resume_jobs() (eon.communicator.MPI method) S save() (eon.explorer.ServerMinModeExplorer method) save_askmc_metadata() (eon.askmc.ASKMC method) save_jobids() (eon.communicator.Script method) save_mode() (in module eon.fileio) save_modified_process_table() (eon.askmc.ASKMC method) save_prng_state() (in module eon.fileio) save_process_table() (eon.akmcstate.AKMCState method) (eon.prstate.PRState method) save_result() (eon.explorer.ProcessSearch method) save_results_dat() (in module eon.fileio) save_state_table() (eon.statelist.StateList method) save_wuid() (eon.explorer.Explorer method) savecon() (in module eon.fileio) saveposcar() (in module eon.fileio) SB_Recycling (class in eon.recycling) Script (class in eon.communicator) search_result_header (eon.prstate.PRState attribute) server() (in module eon.server) ServerMinModeExplorer (class in eon.explorer) set() (eon.fileio.ini method) set_bad_saddle_count() (eon.akmcstate.AKMCState method) set_energy() (eon.state.State method) set_good_saddle_count() (eon.akmcstate.AKMCState method) set_unique_saddle_count() (eon.akmcstate.AKMCState method) setdefault() (eon.movie.priorityDictionary method) shortest_path() (eon.movie.Graph method) signal_handler() (in module eon.mpiwait) smallest() (eon.movie.priorityDictionary method) sort_nicely() (in module eon.communicator) start_minimization() (eon.explorer.ProcessSearch method) start_search() (eon.explorer.ProcessSearch method) State (class in eon.state) state_path() (eon.statelist.StateList method) StateList (class in eon.statelist) step() (eon.superbasin.Superbasin method) (in module eon.escaperate) (in module eon.parallelreplica) submit_jobs() (eon.communicator.Communicator method) (eon.communicator.Local method) (eon.communicator.MPI method) (eon.communicator.Script method) Superbasin (class in eon.superbasin) SuperbasinScheme (class in eon.superbasinscheme) sweep_and_prune() (in module eon.atoms) T Table (class in eon.fileio) TableException tar_procdata() (eon.state.State method) TransitionCounting (class in eon.superbasinscheme) tryint() (in module eon.communicator) U unbundle() (eon.communicator.Communicator method) Undercoordinated (class in eon.displace) update_lowest_barrier() (eon.akmcstate.AKMCState method) W Water (class in eon.displace) write() (eon.fileio.Table method) write_akmc_metadata() (in module eon.akmc) write_data() (eon.superbasin.Superbasin method) (eon.superbasinscheme.EnergyLevel method) (eon.superbasinscheme.RateThreshold method) (eon.superbasinscheme.SuperbasinScheme method) (eon.superbasinscheme.TransitionCounting method) write_metadata() (eon.recycling.SB_Recycling method) write_pr_metadata() (in module eon.escaperate) (in module eon.parallelreplica) write_recycling_metadata() (eon.recycling.Recycling method) writefilehandle() (eon.fileio.Table method) Z zero_time() (eon.prstate.PRState method)
