WESTPA
latest
For Users (v2022.XX):
WESTPA Command Line Interface
WESTPA Core
WESTPA Work Manager
WESTPA Tools
WESTPA Other Components
WESTPA Extensions
WESTPA Analysis
HDF5 file structure
For Developers:
Overview
Code and documentation style guide
Source code management
Building the documentation
WESTPA Modules API
WESTPA Tools
For Legacy Users (v2020.XX):
WEST
WEST tools
WEST work manager
WEST extensions
Command line tool index
HDF5 file schema
Checklist
FAQs
WESTPA
Index
Edit on GitHub
Index
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Z
A
accumulate_labeled_populations() (in module westpa.cli.tools.w_assign)
(in module westpa.core.binning)
accumulate_state_populations_from_labeled() (in module westpa.cli.tools.w_direct)
(in module westpa.core.binning)
accumulate_statistics() (westpa.cli.tools.w_reweight.RWReweight method)
AccuracyError
ACK (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
AdaptiveVoronoiDriver (class in westpa.westext.adaptvoronoi)
(class in westpa.westext.adaptvoronoi.adaptVor_driver)
add() (westpa.tools.selected_segs.AllSegmentSelection method)
(westpa.tools.selected_segs.SegmentSelection method)
(westpa.trajtree.trajtree.AllSegmentSelection method)
(westpa.work_managers.core.FutureWatcher method)
add_all_args() (westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTToolComponent method)
add_args() (westpa.cli.core.w_succ.WESTAnalysisTool method)
(westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.cli.tools.ploterr.CommonPloterrs method)
(westpa.cli.tools.ploterr.DirectKinetics method)
(westpa.cli.tools.ploterr.DirectStateprobs method)
(westpa.cli.tools.ploterr.GenericIntervalSubcommand method)
(westpa.cli.tools.ploterr.ProgressIndicatorComponent method)
(westpa.cli.tools.ploterr.WESTMasterCommand method)
(westpa.cli.tools.plothist.AveragePlotHist method)
(westpa.cli.tools.plothist.EvolutionPlotHist method)
(westpa.cli.tools.plothist.InstantPlotHist method)
(westpa.cli.tools.plothist.PlotHistBase method)
(westpa.cli.tools.plothist.PlotSupports2D method)
(westpa.cli.tools.plothist.WESTMasterCommand method)
(westpa.cli.tools.w_assign.BinMappingComponent method)
(westpa.cli.tools.w_assign.ProgressIndicatorComponent method)
(westpa.cli.tools.w_assign.WAssign method)
(westpa.cli.tools.w_assign.WESTDataReader method)
(westpa.cli.tools.w_assign.WESTDSSynthesizer method)
(westpa.cli.tools.w_assign.WESTParallelTool method)
(westpa.cli.tools.w_bins.BinMappingComponent method)
(westpa.cli.tools.w_bins.WBinTool method)
(westpa.cli.tools.w_bins.WESTDataReader method)
(westpa.cli.tools.w_bins.WESTTool method)
(westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_crawl.ProgressIndicatorComponent method)
(westpa.cli.tools.w_crawl.WCrawl method)
(westpa.cli.tools.w_crawl.WESTDataReader method)
(westpa.cli.tools.w_crawl.WESTParallelTool method)
(westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_direct.WESTKineticsBase method)
(westpa.cli.tools.w_direct.WESTMasterCommand method)
(westpa.cli.tools.w_direct.WESTParallelTool method)
(westpa.cli.tools.w_dumpsegs.WDumpSegs method)
(westpa.cli.tools.w_dumpsegs.WESTDataReader method)
(westpa.cli.tools.w_dumpsegs.WESTTool method)
(westpa.cli.tools.w_eddist.ProgressIndicatorComponent method)
(westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_eddist.WESTParallelTool method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.WESTDataReader method)
(westpa.cli.tools.w_fluxanl.WESTTool method)
(westpa.cli.tools.w_fluxanl.WFluxanlTool method)
(westpa.cli.tools.w_ipa.ProgressIndicatorComponent method)
(westpa.cli.tools.w_ipa.WESTDataReader method)
(westpa.cli.tools.w_ipa.WESTParallelTool method)
(westpa.cli.tools.w_ipa.WIPI method)
(westpa.cli.tools.w_kinavg.WESTMasterCommand method)
(westpa.cli.tools.w_kinavg.WESTParallelTool method)
(westpa.cli.tools.w_kinetics.WESTMasterCommand method)
(westpa.cli.tools.w_kinetics.WESTParallelTool method)
(westpa.cli.tools.w_multi_west.ProgressIndicatorComponent method)
(westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.cli.tools.w_multi_west.WESTTool method)
(westpa.cli.tools.w_multi_west.WMultiWest method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_ntop.ProgressIndicatorComponent method)
(westpa.cli.tools.w_ntop.WESTDataReader method)
(westpa.cli.tools.w_ntop.WESTTool method)
(westpa.cli.tools.w_ntop.WNTopTool method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_pdist.ProgressIndicatorComponent method)
(westpa.cli.tools.w_pdist.WESTDataReader method)
(westpa.cli.tools.w_pdist.WESTDSSynthesizer method)
(westpa.cli.tools.w_pdist.WESTParallelTool method)
(westpa.cli.tools.w_pdist.WESTWDSSynthesizer method)
(westpa.cli.tools.w_pdist.WPDist method)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix method)
(westpa.cli.tools.w_postanalysis_matrix.WESTMasterCommand method)
(westpa.cli.tools.w_postanalysis_matrix.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_reweight.WESTMasterCommand method)
(westpa.cli.tools.w_postanalysis_reweight.WESTParallelTool method)
(westpa.cli.tools.w_red.WESTParallelTool method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.cli.tools.w_reweight.RWMatrix method)
(westpa.cli.tools.w_reweight.RWReweight method)
(westpa.cli.tools.w_reweight.WESTKineticsBase method)
(westpa.cli.tools.w_reweight.WESTMasterCommand method)
(westpa.cli.tools.w_reweight.WESTParallelTool method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.cli.tools.w_select.ProgressIndicatorComponent method)
(westpa.cli.tools.w_select.WESTDataReader method)
(westpa.cli.tools.w_select.WESTParallelTool method)
(westpa.cli.tools.w_select.WSelectTool method)
(westpa.cli.tools.w_stateprobs.WESTMasterCommand method)
(westpa.cli.tools.w_stateprobs.WESTParallelTool method)
(westpa.cli.tools.w_trace.WESTDataReader method)
(westpa.cli.tools.w_trace.WESTTool method)
(westpa.cli.tools.w_trace.WTraceTool method)
(westpa.oldtools.aframe.AnalysisMixin method)
(westpa.oldtools.aframe.atool.WESTAnalysisTool method)
(westpa.oldtools.aframe.base_mixin.AnalysisMixin method)
(westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.binning.AnalysisMixin method)
(westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
(westpa.oldtools.aframe.data_reader.AnalysisMixin method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
(westpa.oldtools.aframe.data_reader.ExtDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.ExtDataReaderMixin method)
(westpa.oldtools.aframe.iter_range.AnalysisMixin method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.oldtools.aframe.kinetics.AnalysisMixin method)
(westpa.oldtools.aframe.kinetics.KineticsAnalysisMixin method)
(westpa.oldtools.aframe.KineticsAnalysisMixin method)
(westpa.oldtools.aframe.mcbs.AnalysisMixin method)
(westpa.oldtools.aframe.mcbs.MCBSMixin method)
(westpa.oldtools.aframe.MCBSMixin method)
(westpa.oldtools.aframe.output.AnalysisMixin method)
(westpa.oldtools.aframe.plotting.AnalysisMixin method)
(westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.AnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.WESTAnalysisTool method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
(westpa.tools.BinMappingComponent method)
(westpa.tools.binning.BinMappingComponent method)
(westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTMasterCommand method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.core.WESTParallelTool method)
(westpa.tools.core.WESTTool method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTDataReader method)
(westpa.tools.data_reader.WESTDSSynthesizer method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.data_reader.WESTWDSSynthesizer method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.AverageCommands method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
(westpa.tools.kinetics_tool.ProgressIndicatorComponent method)
(westpa.tools.kinetics_tool.WESTDataReader method)
(westpa.tools.kinetics_tool.WESTKineticsBase method)
(westpa.tools.progress.ProgressIndicatorComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.ProgressIndicatorComponent method)
(westpa.tools.SegSelector method)
(westpa.tools.selected_segs.SegSelector method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTDataReader method)
(westpa.tools.WESTDSSynthesizer method)
(westpa.tools.WESTMasterCommand method)
(westpa.tools.WESTMultiTool method)
(westpa.tools.WESTParallelTool method)
(westpa.tools.WESTTool method)
(westpa.tools.WESTToolComponent method)
(westpa.tools.WESTWDSSynthesizer method)
add_common_output_args() (westpa.cli.core.w_succ.CommonOutputMixin method)
(westpa.oldtools.aframe.CommonOutputMixin method)
(westpa.oldtools.aframe.output.CommonOutputMixin method)
add_initial_states() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.we_driver.WEDriver method)
add_mapper() (westpa.core.binning.assign.RecursiveBinMapper method)
(westpa.core.binning.RecursiveBinMapper method)
add_mcbs_options() (in module westpa.oldtools.stats.mcbs)
add_target_count_args() (westpa.cli.tools.w_assign.BinMappingComponent method)
(westpa.cli.tools.w_bins.BinMappingComponent method)
(westpa.tools.BinMappingComponent method)
(westpa.tools.binning.BinMappingComponent method)
add_timer() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
add_to_subparsers() (westpa.cli.tools.ploterr.WESTSubcommand method)
(westpa.cli.tools.plothist.WESTSubcommand method)
(westpa.tools.core.WESTSubcommand method)
(westpa.tools.kinetics_tool.WESTSubcommand method)
(westpa.tools.WESTSubcommand method)
add_wm_args() (in module westpa.work_managers.environment)
(westpa.work_managers.core.WorkManager class method)
(westpa.work_managers.environment.WMEnvironment method)
(westpa.work_managers.mpi.WorkManager class method)
(westpa.work_managers.processes.WorkManager class method)
(westpa.work_managers.serial.WorkManager class method)
(westpa.work_managers.threads.WorkManager class method)
(westpa.work_managers.zeromq.work_manager.WorkManager class method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager class method)
(westpa.work_managers.zeromq.ZMQWorkManager class method)
alchemicalLambda (westpa.core.h5io.Frames attribute)
all_acquired() (westpa.work_managers.core.WMFuture static method)
(westpa.work_managers.mpi.WMFuture static method)
(westpa.work_managers.processes.WMFuture static method)
(westpa.work_managers.serial.WMFuture static method)
(westpa.work_managers.threads.WMFuture static method)
(westpa.work_managers.zeromq.work_manager.WMFuture static method)
all_initial_states (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
AllSegmentSelection (class in westpa.tools.selected_segs)
(class in westpa.trajtree.trajtree)
analysis_structure() (westpa.cli.tools.w_ipa.WIPI method)
AnalysisMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.base_mixin)
(class in westpa.oldtools.aframe.binning)
(class in westpa.oldtools.aframe.data_reader)
(class in westpa.oldtools.aframe.iter_range)
(class in westpa.oldtools.aframe.kinetics)
(class in westpa.oldtools.aframe.mcbs)
(class in westpa.oldtools.aframe.output)
(class in westpa.oldtools.aframe.plotting)
(class in westpa.oldtools.aframe.transitions)
append() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
appendleft() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
application (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
apply_down() (in module westpa.core.binning.assign)
apply_down_argmin_across() (in module westpa.core.binning.assign)
arg_flag() (westpa.work_managers.environment.WMEnvironment method)
arg_name() (westpa.work_managers.environment.WMEnvironment method)
arg_prefix (westpa.work_managers.environment.WMEnvironment attribute)
ArgumentError
,
[1]
,
[2]
as_array() (westpa.oldtools.stats.edfs.EDF method)
as_completed() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
as_numpy_record() (westpa.cli.core.w_fork.InitialState method)
(westpa.cli.core.w_init.BasisState method)
(westpa.cli.core.w_states.BasisState method)
(westpa.cli.tools.w_trace.InitialState method)
(westpa.core.binning.mab_manager.InitialState method)
(westpa.core.data_manager.BasisState method)
(westpa.core.data_manager.InitialState method)
(westpa.core.propagators.executable.BasisState method)
(westpa.core.propagators.executable.InitialState method)
(westpa.core.sim_manager.InitialState method)
(westpa.core.states.BasisState method)
(westpa.core.states.InitialState method)
(westpa.core.we_driver.InitialState method)
assign (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
assign() (westpa.core.binning.assign.FuncBinMapper method)
(westpa.core.binning.assign.NopMapper method)
(westpa.core.binning.assign.PiecewiseBinMapper method)
(westpa.core.binning.assign.RectilinearBinMapper method)
(westpa.core.binning.assign.RecursiveBinMapper method)
(westpa.core.binning.assign.VectorizingFuncBinMapper method)
(westpa.core.binning.assign.VoronoiBinMapper method)
(westpa.core.binning.BinlessDriver method)
(westpa.core.binning.FuncBinMapper method)
(westpa.core.binning.mab.FuncBinMapper method)
(westpa.core.binning.mab_driver.MABDriver method)
(westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.binning.MABDriver method)
(westpa.core.binning.NopMapper method)
(westpa.core.binning.PiecewiseBinMapper method)
(westpa.core.binning.RectilinearBinMapper method)
(westpa.core.binning.RecursiveBinMapper method)
(westpa.core.binning.VectorizingFuncBinMapper method)
(westpa.core.binning.VoronoiBinMapper method)
(westpa.core.systems.NopMapper method)
(westpa.core.we_driver.WEDriver method)
(westpa.core.yamlcfg.NopMapper method)
(westpa.tools.binning.RectilinearBinMapper method)
(westpa.westext.adaptvoronoi.adaptVor_driver.VoronoiBinMapper method)
assign_and_label() (in module westpa.cli.tools.w_assign)
(in module westpa.core.binning)
assign_iteration() (westpa.cli.tools.w_assign.WAssign method)
assign_to_bins() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
assignments_list_to_table() (in module westpa.cli.tools.w_ntop)
(in module westpa.core.binning)
atom_slice() (westpa.core.h5io.Trajectory method)
attrgetter (class in westpa.core.data_manager)
aux_data_loader() (in module westpa.core.propagators.executable)
auxiliary_data (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Walker property)
average() (westpa.oldtools.stats.accumulator.RunningStatsAccumulator method)
(westpa.oldtools.stats.RunningStatsAccumulator method)
AverageCommands (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_reweight)
(class in westpa.tools.kinetics_tool)
AveragePlotHist (class in westpa.cli.tools.plothist)
B
BasicMDTrajectory (class in westpa.analysis.trajectories)
basis_state() (westpa.analysis.core.Iteration method)
basis_state_pcoords (westpa.analysis.core.Iteration property)
basis_state_summaries (westpa.analysis.core.Iteration property)
basis_states (westpa.analysis.core.Iteration property)
BasisState (class in westpa.cli.core.w_init)
(class in westpa.cli.core.w_states)
(class in westpa.core.data_manager)
(class in westpa.core.propagators.executable)
(class in westpa.core.states)
BFDataManager (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.data_reader)
BFTransitionAnalysisMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.transitions)
Bin (class in westpa.analysis.core)
(class in westpa.core.binning)
(class in westpa.core.binning.assign)
(class in westpa.core.binning.bins)
bin() (westpa.analysis.core.Iteration method)
bin_labels (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
bin_mapper (westpa.analysis.core.Iteration property)
bin_target_counts (westpa.analysis.core.Iteration property)
(westpa.core.systems.WESTSystem property)
(westpa.core.yamlcfg.YAMLSystem property)
BinlessDriver (class in westpa.core.binning)
BinlessMapper (class in westpa.core.binning)
BinlessSimManager (class in westpa.core.binning)
BinMapper (class in westpa.core.binning.assign)
BinMappingComponent (class in westpa.cli.tools.w_assign)
(class in westpa.cli.tools.w_bins)
(class in westpa.tools)
(class in westpa.tools.binning)
binning_hchunksize (westpa.core.data_manager.WESTDataManager attribute)
BinningMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.binning)
bins (westpa.analysis.core.Iteration property)
bins_from_yaml_dict() (in module westpa.westext.weed.weed_driver)
(in module westpa.westext.wess.wess_driver)
BinUnion (class in westpa.analysis.core)
blocked_iter() (in module westpa.core.propagators)
bootstrap_ci() (in module westpa.oldtools.aframe.mcbs)
(in module westpa.oldtools.stats.mcbs)
bootstrap_ci_ll() (in module westpa.oldtools.aframe.mcbs)
boundaries (westpa.core.binning.assign.RectilinearBinMapper property)
(westpa.core.binning.RectilinearBinMapper property)
(westpa.tools.binning.RectilinearBinMapper property)
BytesIO (class in westpa.core.propagators.executable)
C
cache_data() (westpa.core.h5io.IterBlockedDataset method)
cache_pcoords (westpa.cli.core.w_succ.WESTDataReaderMixin property)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin property)
(westpa.oldtools.aframe.WESTDataReaderMixin property)
calc_avg_rate() (in module westpa.cli.tools.w_red)
calc_chunksize() (in module westpa.core.data_manager)
(in module westpa.core.h5io)
calc_ci_bound_indices() (in module westpa.oldtools.aframe.mcbs)
(westpa.oldtools.aframe.mcbs.MCBSMixin method)
(westpa.oldtools.aframe.MCBSMixin method)
calc_evol_flux() (westpa.cli.tools.w_fluxanl.WFluxanlTool method)
calc_mcbs_nsets() (in module westpa.oldtools.aframe.mcbs)
(westpa.oldtools.aframe.mcbs.MCBSMixin method)
(westpa.oldtools.aframe.MCBSMixin method)
calc_rate() (westpa.cli.tools.w_red.RateCalculator method)
calc_rates() (in module westpa.cli.tools.w_red)
(in module westpa.core.kinetics.rate_averaging)
(westpa.cli.tools.w_red.RateCalculator method)
calc_stats() (in module westpa.core.reweight.matrix)
calc_store_flux_data() (westpa.cli.tools.w_fluxanl.WFluxanlTool method)
calculate() (westpa.core.kinetics.rate_averaging.RateAverager method)
(westpa.core.kinetics.RateAverager method)
(westpa.westext.weed.weed_driver.RateAverager method)
(westpa.westext.wess.wess_driver.RateAverager method)
calculate_labeled_fluxes() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.matrates)
calculate_labeled_fluxes_alllags() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.matrates)
calculate_state_populations() (westpa.cli.tools.w_direct.DStateProbs method)
(westpa.cli.tools.w_stateprobs.DStateProbs method)
canonicalize_endpoint() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager class method)
(westpa.work_managers.zeromq.ZMQWorkManager class method)
cell_angles (westpa.core.h5io.Frames attribute)
cell_lengths (westpa.core.h5io.Frames attribute)
center_coordinates() (westpa.core.h5io.Trajectory method)
change_duration() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
check_bin_selection() (westpa.oldtools.aframe.kinetics.KineticsAnalysisMixin method)
(westpa.oldtools.aframe.KineticsAnalysisMixin method)
check_bool() (in module westpa.core.propagators.executable)
(in module westpa.core.yamlcfg)
(in module westpa.westext.adaptvoronoi.adaptVor_driver)
(in module westpa.westext.weed.weed_driver)
(in module westpa.westext.wess.wess_driver)
check_data_binhash() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
check_data_iter_range_equal() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
check_data_iter_range_least() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
check_data_iter_step_conformant() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
check_data_iter_step_equal() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
check_iter_range() (westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
check_iter_range_equal() (in module westpa.core.h5io)
check_iter_range_least() (in module westpa.core.h5io)
check_propagation() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
check_threshold_configs() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.we_driver.WEDriver method)
check_workers() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
children (westpa.analysis.core.Walker property)
clear() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.progress.ProgressIndicator method)
(westpa.core.we_driver.WEDriver method)
(westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
(westpa.tools.progress.ProgressIndicator method)
(westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
clear_basis_initial_states() (westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
clear_run_cache() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
clear_state() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
clockIn() (westpa.work_managers.mpi.Worker method)
close() (westpa.analysis.core.Run method)
(westpa.cli.tools.w_assign.WESTDataReader method)
(westpa.cli.tools.w_bins.WESTDataReader method)
(westpa.cli.tools.w_crawl.WESTDataReader method)
(westpa.cli.tools.w_dumpsegs.WESTDataReader method)
(westpa.cli.tools.w_fluxanl.WESTDataReader method)
(westpa.cli.tools.w_ipa.WESTDataReader method)
(westpa.cli.tools.w_ntop.WESTDataReader method)
(westpa.cli.tools.w_pdist.WESTDataReader method)
(westpa.cli.tools.w_select.WESTDataReader method)
(westpa.cli.tools.w_trace.WESTDataReader method)
(westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.propagators.executable.BytesIO method)
(westpa.core.textio.NumericTextOutputFormatter method)
(westpa.tools.data_reader.WESTDataReader method)
(westpa.tools.kinetics_tool.WESTDataReader method)
(westpa.tools.WESTDataReader method)
close_analysis_backing() (westpa.cli.core.w_succ.WESTAnalysisTool method)
(westpa.oldtools.aframe.atool.WESTAnalysisTool method)
(westpa.oldtools.aframe.WESTAnalysisTool method)
close_backing() (westpa.core.data_manager.WESTDataManager method)
close_bf_h5file() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
closed (westpa.analysis.core.Run property)
(westpa.core.data_manager.WESTDataManager property)
(westpa.core.propagators.executable.BytesIO attribute)
ClusterList (class in westpa.westext.weed.BinCluster)
cmd_info() (westpa.cli.tools.w_bins.WBinTool method)
cmd_rebin() (westpa.cli.tools.w_bins.WBinTool method)
cmoment() (westpa.oldtools.stats.edfs.EDF method)
coalesce_announcements() (westpa.work_managers.zeromq.core.Message class method)
(westpa.work_managers.zeromq.node.Message class method)
(westpa.work_managers.zeromq.work_manager.Message class method)
(westpa.work_managers.zeromq.worker.Message class method)
coerce_type_if_present() (westpa.core.yamlcfg.YAMLConfig method)
color_output_filename (westpa.cli.tools.ploterr.DirectStateprobs attribute)
(westpa.cli.tools.ploterr.ReweightStateprobs attribute)
comm_loop() (westpa.work_managers.zeromq.node.ZMQNode method)
(westpa.work_managers.zeromq.work_manager.ZMQNode method)
(westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.worker.ZMQExecutor method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQNode method)
(westpa.work_managers.zeromq.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
comment_string (westpa.core.textio.NumericTextOutputFormatter attribute)
CommonOutputMixin (class in westpa.cli.core.w_succ)
(class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.output)
CommonPloterrs (class in westpa.cli.tools.ploterr)
concatenate() (in module westpa.analysis.trajectories)
(westpa.westext.weed.UncertMath.UncertContainer method)
conditional_fluxes (westpa.cli.tools.w_red.RateCalculator property)
ConfigItemMissing
,
[1]
ConfigItemTypeError
ConfigValueError
ConfigValueWarning
ConsistencyError
ConsistencyWarning
constraints (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
construct_bins() (westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_pdist.WPDist method)
(westpa.core.binning.assign.BinMapper method)
construct_histogram() (westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_pdist.WPDist method)
construct_next() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.we_driver.WEDriver method)
contextmanager() (in module westpa.work_managers.core)
continue_accumulation() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
coord_dtype (in module westpa.core.binning)
(in module westpa.core.binning.assign)
coordinates (westpa.core.h5io.Frames attribute)
copy() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
correction() (westpa.cli.tools.w_red.DurationCorrector method)
count (class in westpa.tools.binning)
count() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
count_dtype (westpa.oldtools.aframe.TransitionEventAccumulator attribute)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator attribute)
create_dataset_from_dsopts() (in module westpa.core.data_manager)
create_hdf5_group() (in module westpa.core.h5io)
create_ibstate_group() (westpa.core.data_manager.WESTDataManager method)
create_ibstate_iter_h5file() (westpa.core.data_manager.WESTDataManager method)
create_idtype_array() (in module westpa.cli.tools.w_multi_west)
create_initial_states() (westpa.core.data_manager.WESTDataManager method)
create_iter_group() (westpa.cli.tools.w_assign.WESTPAH5File method)
(westpa.core.h5io.WESTPAH5File method)
create_traj_group() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
cumulative_event_duration_histogram (westpa.cli.tools.w_red.DurationCorrector property)
current (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
current_iter_assignments (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
current_iter_segments (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
current_iteration (westpa.core.data_manager.WESTDataManager property)
D
DAll (class in westpa.cli.tools.w_direct)
DAverage (class in westpa.cli.tools.w_direct)
days (westpa.core.sim_manager.timedelta attribute)
default_aux_compression_threshold (westpa.core.data_manager.WESTDataManager attribute)
default_chunksize (westpa.oldtools.aframe.data_reader.ExtDataReaderMixin attribute)
(westpa.oldtools.aframe.ExtDataReaderMixin attribute)
default_comm_mode (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
default_flush_period (westpa.core.data_manager.WESTDataManager attribute)
default_iter_prec (westpa.cli.tools.w_assign.WESTPAH5File attribute)
(westpa.core.data_manager.WESTDataManager attribute)
(westpa.core.h5io.WESTPAH5File attribute)
default_kinetics_file (westpa.cli.tools.w_direct.DAll attribute)
(westpa.cli.tools.w_direct.DAverage attribute)
(westpa.cli.tools.w_direct.DKinAvg attribute)
(westpa.cli.tools.w_direct.DKinetics attribute)
(westpa.cli.tools.w_direct.DStateProbs attribute)
(westpa.cli.tools.w_kinavg.DKinAvg attribute)
(westpa.cli.tools.w_kinavg.WKinAvg attribute)
(westpa.cli.tools.w_kinetics.DKinetics attribute)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix attribute)
(westpa.cli.tools.w_postanalysis_reweight.PAAverage attribute)
(westpa.cli.tools.w_postanalysis_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWAll attribute)
(westpa.cli.tools.w_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWMatrix attribute)
(westpa.cli.tools.w_reweight.RWRate attribute)
(westpa.cli.tools.w_reweight.RWStateProbs attribute)
(westpa.cli.tools.w_stateprobs.DStateProbs attribute)
(westpa.cli.tools.w_stateprobs.WStateProbs attribute)
default_master_heartbeat (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
default_output_file (westpa.cli.tools.w_direct.AverageCommands attribute)
(westpa.cli.tools.w_direct.DKinetics attribute)
(westpa.cli.tools.w_kinavg.WKinAvg attribute)
(westpa.cli.tools.w_kinetics.DKinetics attribute)
(westpa.cli.tools.w_kinetics.WKinetics attribute)
(westpa.cli.tools.w_postanalysis_matrix.PAMatrix attribute)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix attribute)
(westpa.cli.tools.w_postanalysis_reweight.PAAverage attribute)
(westpa.cli.tools.w_postanalysis_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.AverageCommands attribute)
(westpa.cli.tools.w_reweight.RWAll attribute)
(westpa.cli.tools.w_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWMatrix attribute)
(westpa.cli.tools.w_reweight.RWRate attribute)
(westpa.cli.tools.w_stateprobs.WStateProbs attribute)
(westpa.tools.kinetics_tool.AverageCommands attribute)
default_parallel_work_manager (westpa.work_managers.environment.WMEnvironment attribute)
default_shutdown_timeout (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
default_startup_timeout (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
default_timeout_factor (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
default_we_h5file_driver (westpa.core.data_manager.WESTDataManager attribute)
default_we_h5filename (westpa.core.data_manager.WESTDataManager attribute)
default_work_manager (westpa.work_managers.environment.WMEnvironment attribute)
default_worker_heartbeat (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
del_iter_group() (westpa.core.data_manager.WESTDataManager method)
del_iter_summary() (westpa.core.data_manager.WESTDataManager method)
delete_binning_group() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
delete_transitions_group() (westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
deque (class in westpa.work_managers.mpi)
(class in westpa.work_managers.zeromq.work_manager)
description (westpa.cli.tools.ploterr.DirectKinetics attribute)
(westpa.cli.tools.ploterr.DirectStateprobs attribute)
(westpa.cli.tools.ploterr.GenericIntervalSubcommand attribute)
(westpa.cli.tools.ploterr.PloterrsTool attribute)
(westpa.cli.tools.ploterr.WESTSubcommand attribute)
(westpa.cli.tools.plothist.AveragePlotHist attribute)
(westpa.cli.tools.plothist.EvolutionPlotHist attribute)
(westpa.cli.tools.plothist.InstantPlotHist attribute)
(westpa.cli.tools.plothist.PlotHistTool attribute)
(westpa.cli.tools.plothist.WESTSubcommand attribute)
(westpa.cli.tools.w_assign.WAssign attribute)
(westpa.cli.tools.w_bins.WBinTool attribute)
(westpa.cli.tools.w_bins.WESTTool attribute)
(westpa.cli.tools.w_crawl.WCrawl attribute)
(westpa.cli.tools.w_direct.DAll attribute)
(westpa.cli.tools.w_direct.DAverage attribute)
(westpa.cli.tools.w_direct.DKinAvg attribute)
(westpa.cli.tools.w_direct.DKinetics attribute)
(westpa.cli.tools.w_direct.DStateProbs attribute)
(westpa.cli.tools.w_dumpsegs.WDumpSegs attribute)
(westpa.cli.tools.w_dumpsegs.WESTTool attribute)
(westpa.cli.tools.w_eddist.WEDDist attribute)
(westpa.cli.tools.w_fluxanl.WESTTool attribute)
(westpa.cli.tools.w_fluxanl.WFluxanlTool attribute)
(westpa.cli.tools.w_kinavg.DKinAvg attribute)
(westpa.cli.tools.w_kinavg.WDirect attribute)
(westpa.cli.tools.w_kinetics.DKinetics attribute)
(westpa.cli.tools.w_kinetics.WDirect attribute)
(westpa.cli.tools.w_multi_west.WESTTool attribute)
(westpa.cli.tools.w_multi_west.WMultiWest attribute)
(westpa.cli.tools.w_ntop.WESTTool attribute)
(westpa.cli.tools.w_ntop.WNTopTool attribute)
(westpa.cli.tools.w_pdist.WPDist attribute)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix attribute)
(westpa.cli.tools.w_postanalysis_matrix.WReweight attribute)
(westpa.cli.tools.w_postanalysis_reweight.RWAverage attribute)
(westpa.cli.tools.w_postanalysis_reweight.WReweight attribute)
(westpa.cli.tools.w_red.WRed attribute)
(westpa.cli.tools.w_reweight.RWAll attribute)
(westpa.cli.tools.w_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWMatrix attribute)
(westpa.cli.tools.w_reweight.RWRate attribute)
(westpa.cli.tools.w_reweight.RWStateProbs attribute)
(westpa.cli.tools.w_select.WSelectTool attribute)
(westpa.cli.tools.w_stateprobs.DStateProbs attribute)
(westpa.cli.tools.w_stateprobs.WDirect attribute)
(westpa.cli.tools.w_trace.WESTTool attribute)
(westpa.cli.tools.w_trace.WTraceTool attribute)
(westpa.tools.core.WESTSubcommand attribute)
(westpa.tools.core.WESTTool attribute)
(westpa.tools.kinetics_tool.WESTSubcommand attribute)
(westpa.tools.WESTSubcommand attribute)
(westpa.tools.WESTTool attribute)
dfunc() (westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
direct (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
DirectKinetics (class in westpa.cli.tools.ploterr)
DirectStateprobs (class in westpa.cli.tools.ploterr)
dirname() (in module westpa.core.data_manager)
distance_unit (westpa.core.h5io.HDF5TrajectoryFile attribute)
DKinAvg (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_kinavg)
DKinetics (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_kinetics)
do_average_plot_1d() (westpa.cli.tools.plothist.AveragePlotHist method)
do_average_plot_2d() (westpa.cli.tools.plothist.AveragePlotHist method)
do_instant_plot_1d() (westpa.cli.tools.plothist.InstantPlotHist method)
do_instant_plot_2d() (westpa.cli.tools.plothist.InstantPlotHist method)
do_plot() (westpa.cli.tools.ploterr.CommonPloterrs method)
done (westpa.work_managers.core.WMFuture property)
(westpa.work_managers.mpi.WMFuture property)
(westpa.work_managers.processes.WMFuture property)
(westpa.work_managers.serial.WMFuture property)
(westpa.work_managers.threads.WMFuture property)
(westpa.work_managers.zeromq.work_manager.WMFuture property)
draw() (westpa.core.progress.ProgressIndicator method)
(westpa.tools.progress.ProgressIndicator method)
draw_fancy() (westpa.core.progress.ProgressIndicator method)
(westpa.tools.progress.ProgressIndicator method)
draw_simple() (westpa.core.progress.ProgressIndicator method)
(westpa.tools.progress.ProgressIndicator method)
drop_cache() (westpa.core.h5io.IterBlockedDataset method)
DSSpec (class in westpa.core.h5io)
DStateProbs (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_stateprobs)
dtau (westpa.cli.tools.w_red.RateCalculator property)
duration (westpa.work_managers.zeromq.core.PassiveTimer attribute)
DurationCorrector (class in westpa.cli.tools.w_red)
DurationDataset (class in westpa.cli.tools.w_eddist)
E
EDF (class in westpa.oldtools.stats.edfs)
emit_header (westpa.core.textio.NumericTextOutputFormatter attribute)
emit_trace_h5() (westpa.cli.tools.w_trace.WTraceTool method)
emit_trace_text() (westpa.cli.tools.w_trace.WTraceTool method)
empty_like() (westpa.core.h5io.IterBlockedDataset class method)
endpoint_type_names (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
endpoint_type_text (westpa.cli.core.w_fork.Segment property)
(westpa.cli.core.w_states.Segment property)
(westpa.cli.core.w_succ.Segment property)
(westpa.cli.tools.w_dumpsegs.Segment property)
(westpa.cli.tools.w_trace.Segment property)
(westpa.core.binning.mab_manager.Segment property)
(westpa.core.data_manager.Segment property)
(westpa.core.propagators.executable.Segment property)
(westpa.core.segment.Segment property)
(westpa.core.sim_manager.Segment property)
(westpa.core.states.Segment property)
(westpa.core.we_driver.Segment property)
(westpa.oldtools.aframe.data_reader.Segment property)
endpoint_types (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
ensure_type() (in module westpa.core.h5io)
entry_point() (in module westpa.cli.core.w_fork)
(in module westpa.cli.core.w_init)
(in module westpa.cli.core.w_run)
(in module westpa.cli.core.w_states)
(in module westpa.cli.core.w_succ)
(in module westpa.cli.core.w_truncate)
(in module westpa.cli.tools.ploterr)
(in module westpa.cli.tools.plothist)
(in module westpa.cli.tools.w_assign)
(in module westpa.cli.tools.w_bins)
(in module westpa.cli.tools.w_crawl)
(in module westpa.cli.tools.w_direct)
(in module westpa.cli.tools.w_dumpsegs)
(in module westpa.cli.tools.w_eddist)
(in module westpa.cli.tools.w_fluxanl)
(in module westpa.cli.tools.w_ipa)
(in module westpa.cli.tools.w_kinavg)
(in module westpa.cli.tools.w_kinetics)
(in module westpa.cli.tools.w_multi_west)
(in module westpa.cli.tools.w_ntop)
(in module westpa.cli.tools.w_pdist)
(in module westpa.cli.tools.w_postanalysis_matrix)
(in module westpa.cli.tools.w_postanalysis_reweight)
(in module westpa.cli.tools.w_red)
(in module westpa.cli.tools.w_reweight)
(in module westpa.cli.tools.w_select)
(in module westpa.cli.tools.w_stateprobs)
(in module westpa.cli.tools.w_trace)
ENV_BSTATE_DATA_REF (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_BSTATE_ID (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_CURRENT_ITER (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_CURRENT_SEG_DATA_REF (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_CURRENT_SEG_ID (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_CURRENT_SEG_INITPOINT (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_ISTATE_DATA_REF (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_ISTATE_ID (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
env_name() (westpa.work_managers.environment.WMEnvironment method)
ENV_PARENT_DATA_REF (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_PARENT_SEG_ID (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
env_prefix (westpa.work_managers.environment.WMEnvironment attribute)
ENV_RAND128 (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_RAND16 (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_RAND32 (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_RAND64 (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_RANDFLOAT (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
ENV_STRUCT_DATA_REF (westpa.core.data_manager.ExecutablePropagator attribute)
(westpa.core.propagators.executable.ExecutablePropagator attribute)
epilog (westpa.cli.tools.w_bins.WESTTool attribute)
(westpa.cli.tools.w_dumpsegs.WESTTool attribute)
(westpa.cli.tools.w_fluxanl.WESTTool attribute)
(westpa.cli.tools.w_multi_west.WESTTool attribute)
(westpa.cli.tools.w_ntop.WESTTool attribute)
(westpa.cli.tools.w_trace.WESTTool attribute)
(westpa.tools.core.WESTTool attribute)
(westpa.tools.WESTTool attribute)
estimate_rates() (in module westpa.core.kinetics.matrates)
event_duration_histogram (westpa.cli.tools.w_red.DurationCorrector property)
EvolutionPlotHist (class in westpa.cli.tools.plothist)
exception (westpa.work_managers.core.WMFuture property)
(westpa.work_managers.mpi.WMFuture property)
(westpa.work_managers.processes.WMFuture property)
(westpa.work_managers.serial.WMFuture property)
(westpa.work_managers.threads.WMFuture property)
(westpa.work_managers.zeromq.work_manager.WMFuture property)
exclude_arg() (westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTToolComponent method)
exec_child() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
exec_child_from_child_info() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
exec_for_basis_state() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
exec_for_initial_state() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
exec_for_iteration() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
exec_for_segment() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
ExecutablePropagator (class in westpa.core.data_manager)
(class in westpa.core.propagators.executable)
execute() (westpa.work_managers.zeromq.core.Task method)
(westpa.work_managers.zeromq.work_manager.Task method)
(westpa.work_managers.zeromq.worker.Task method)
expandvars() (in module westpa.core.binning.mab)
expired (westpa.work_managers.zeromq.core.PassiveTimer property)
expired() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
expires_in (westpa.work_managers.zeromq.core.PassiveTimer property)
expiring_flushing_lock (class in westpa.core.data_manager)
expiring_flushing_lock() (westpa.core.data_manager.WESTDataManager method)
ExtDataReaderMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.data_reader)
extend() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
extendleft() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
extent (westpa.core.progress.ProgressIndicator property)
(westpa.tools.progress.ProgressIndicator property)
extract_data() (westpa.core.kinetics.rate_averaging.RateAverager method)
(westpa.core.kinetics.RateAverager method)
(westpa.westext.weed.weed_driver.RateAverager method)
(westpa.westext.wess.wess_driver.RateAverager method)
extract_fluxes() (in module westpa.cli.tools.w_fluxanl)
F
FakeTrajTreeSet (class in westpa.trajtree.trajtree)
fconcat (westpa.analysis.trajectories.Trajectory property)
fftconvolve() (in module westpa.cli.tools.w_fluxanl)
fget (westpa.analysis.trajectories.Trajectory property)
FileLinkedDSSpec (class in westpa.core.h5io)
final_pcoord() (westpa.cli.core.w_fork.Segment static method)
(westpa.cli.core.w_states.Segment static method)
(westpa.cli.core.w_succ.Segment static method)
(westpa.cli.tools.w_dumpsegs.Segment static method)
(westpa.cli.tools.w_trace.Segment static method)
(westpa.core.binning.mab_manager.Segment static method)
(westpa.core.data_manager.Segment static method)
(westpa.core.propagators.executable.Segment static method)
(westpa.core.segment.Segment static method)
(westpa.core.sim_manager.Segment static method)
(westpa.core.states.Segment static method)
(westpa.core.we_driver.Segment static method)
(westpa.oldtools.aframe.data_reader.Segment static method)
finalize() (westpa.cli.tools.w_crawl.WESTPACrawler method)
finalize_iteration() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
(westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
(westpa.core.sim_manager.WESimManager method)
finalize_run() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.core.sim_manager.WESimManager method)
(westpa.core.systems.WESTSystem method)
(westpa.core.yamlcfg.YAMLSystem method)
find_bin_mapper() (westpa.core.data_manager.WESTDataManager method)
find_ibstate_group() (westpa.core.data_manager.WESTDataManager method)
find_macrostate_transitions() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.events)
find_successful_trajs() (westpa.cli.core.w_succ.WSucc method)
find_transitions() (westpa.oldtools.aframe.BFTransitionAnalysisMixin method)
(westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.BFTransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
find_tstate_group() (westpa.core.data_manager.WESTDataManager method)
flat_to_nested_matrix() (in module westpa.core.kinetics)
flat_to_nested_vector() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.matrates)
flush() (westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.propagators.executable.BytesIO method)
flush_backing() (westpa.core.data_manager.WESTDataManager method)
flush_transition_data() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
flushing_lock (class in westpa.core.data_manager)
flushing_lock() (westpa.core.data_manager.WESTDataManager method)
flux_assign() (in module westpa.core.kinetics.rate_averaging)
flux_output_filename (westpa.cli.tools.ploterr.DirectKinetics attribute)
(westpa.cli.tools.ploterr.ReweightKinetics attribute)
FluxMatrix (class in westpa.cli.tools.w_reweight)
(class in westpa.core.reweight)
(class in westpa.core.reweight.matrix)
FnDSSpec (class in westpa.core.h5io)
(class in westpa.tools.data_reader)
forcefield (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
Frames (class in westpa.core.h5io)
from_array() (westpa.oldtools.stats.edfs.EDF static method)
from_arrays() (westpa.oldtools.stats.edfs.EDF static method)
from_data_manager() (westpa.cli.tools.w_trace.Trace class method)
from_environ() (westpa.work_managers.core.WorkManager class method)
(westpa.work_managers.mpi.MPIWorkManager class method)
(westpa.work_managers.mpi.WorkManager class method)
(westpa.work_managers.processes.ProcessWorkManager class method)
(westpa.work_managers.processes.WorkManager class method)
(westpa.work_managers.ProcessWorkManager class method)
(westpa.work_managers.serial.SerialWorkManager class method)
(westpa.work_managers.serial.WorkManager class method)
(westpa.work_managers.SerialWorkManager class method)
(westpa.work_managers.threads.ThreadsWorkManager class method)
(westpa.work_managers.threads.WorkManager class method)
(westpa.work_managers.ThreadsWorkManager class method)
(westpa.work_managers.zeromq.work_manager.WorkManager class method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager class method)
(westpa.work_managers.zeromq.ZMQWorkManager class method)
from_iter() (westpa.tools.selected_segs.AllSegmentSelection method)
(westpa.tools.selected_segs.SegmentSelection method)
(westpa.trajtree.trajtree.AllSegmentSelection method)
from_kinetics_file() (westpa.cli.tools.w_red.DurationCorrector static method)
from_string() (westpa.core.h5io.SingleDSSpec class method)
from_text() (westpa.tools.selected_segs.SegmentSelection class method)
fstate (westpa.cli.tools.w_red.RateCalculator property)
FuncBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
(class in westpa.core.binning.mab)
future (westpa.cli.tools.w_ipa.WIPI property)
FutureWatcher (class in westpa.work_managers.core)
G
gen_istate() (in module westpa.core.wm_ops)
(westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
(westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
generate_file_list() (westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.WESTMultiTool method)
generate_future() (in module westpa.cli.tools.w_reweight)
(in module westpa.tools.kinetics_tool)
generate_reweight_data() (westpa.cli.tools.w_reweight.RWReweight method)
GenericIntervalSubcommand (class in westpa.cli.tools.ploterr)
get() (westpa.core.yamlcfg.YAMLConfig method)
get_all_parent_ids() (westpa.core.data_manager.WESTDataManager method)
get_basis_states() (westpa.core.data_manager.WESTDataManager method)
get_bin_assignments() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
get_bin_mapper() (in module westpa.cli.tools.w_multi_west)
(westpa.core.data_manager.WESTDataManager method)
get_bin_populations() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
get_bssize() (in module westpa.mclib)
(in module westpa.oldtools.stats.mcbs)
get_bstate_pcoords() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
get_child_ids() (westpa.core.data_manager.WESTDataManager method)
get_children() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_choice() (westpa.core.yamlcfg.YAMLConfig method)
get_created_seg_ids() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_creator_data() (in module westpa.core.h5io)
get_dfunc_method() (westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
get_exception() (westpa.work_managers.core.WMFuture method)
(westpa.work_managers.mpi.WMFuture method)
(westpa.work_managers.processes.WMFuture method)
(westpa.work_managers.serial.WMFuture method)
(westpa.work_managers.threads.WMFuture method)
(westpa.work_managers.zeromq.work_manager.WMFuture method)
get_extent() (westpa.cli.tools.plothist.NonUniformImage method)
get_identification() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
get_initial_centers() (westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
get_initial_nodes() (westpa.oldtools.aframe.TrajWalker method)
(westpa.oldtools.aframe.trajwalker.TrajWalker method)
(westpa.oldtools.aframe.transitions.TrajWalker method)
get_initial_states() (westpa.core.data_manager.WESTDataManager method)
get_istate_futures() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
get_iter_data() (westpa.cli.tools.w_eddist.DurationDataset method)
(westpa.core.h5io.DSSpec method)
(westpa.core.h5io.FnDSSpec method)
(westpa.core.h5io.MultiDSSpec method)
(westpa.core.h5io.SingleIterDSSpec method)
(westpa.core.h5io.SingleSegmentDSSpec method)
(westpa.tools.data_reader.FnDSSpec method)
(westpa.tools.data_reader.MultiDSSpec method)
(westpa.tools.data_reader.SingleIterDSSpec method)
(westpa.tools.data_reader.SingleSegmentDSSpec method)
get_iter_group() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.cli.tools.w_assign.WESTPAH5File method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.core.h5io.WESTPAH5File method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_iter_range() (in module westpa.core.h5io)
get_iter_step() (in module westpa.core.h5io)
get_iter_summary() (westpa.core.data_manager.WESTDataManager method)
get_iteration_entry() (in module westpa.core.h5io)
get_iteration_slice() (in module westpa.core.h5io)
get_macrostate_rates() (in module westpa.core.kinetics.matrates)
get_mapper_func() (westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
get_max_traj_len() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
get_n_trajs() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
get_new_weight_data() (westpa.core.data_manager.WESTDataManager method)
get_object() (in module westpa.cli.tools.plothist)
(in module westpa.cli.tools.w_assign)
(in module westpa.cli.tools.w_crawl)
(in module westpa.cli.tools.w_select)
(in module westpa.core.extloader)
(in module westpa.core.propagators.executable)
(in module westpa.tools.binning)
(in module westpa.tools.data_reader)
get_parent_array() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_parent_ids() (westpa.core.data_manager.WESTDataManager method)
get_path() (westpa.core.yamlcfg.YAMLConfig method)
get_pathlist() (westpa.core.yamlcfg.YAMLConfig method)
get_pcoord() (in module westpa.core.wm_ops)
(westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
(westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
get_pcoord_array() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_pcoord_dataset() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_pcoord_len() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_pcoords() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_python_object() (westpa.core.yamlcfg.YAMLConfig method)
get_rates() (westpa.westext.weed.weed_driver.WEEDDriver method)
(westpa.westext.weed.WEEDDriver method)
(westpa.westext.wess.wess_driver.WESSDriver method)
(westpa.westext.wess.WESSDriver method)
get_raw_rates() (in module westpa.cli.tools.w_red)
get_result() (westpa.work_managers.core.WMFuture method)
(westpa.work_managers.mpi.WMFuture method)
(westpa.work_managers.processes.WMFuture method)
(westpa.work_managers.serial.WMFuture method)
(westpa.work_managers.threads.WMFuture method)
(westpa.work_managers.zeromq.work_manager.WMFuture method)
get_root_indices() (westpa.trajtree.trajtree.TrajTreeSet method)
(westpa.trajtree.TrajTreeSet method)
get_roots() (westpa.trajtree.trajtree.TrajTreeSet method)
(westpa.trajtree.TrajTreeSet method)
get_seg_ids() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_seg_index() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_segment_data() (westpa.core.h5io.DSSpec method)
(westpa.core.h5io.SingleSegmentDSSpec method)
(westpa.tools.data_reader.SingleSegmentDSSpec method)
get_segment_data_slice() (westpa.cli.tools.w_trace.Trace method)
get_segment_initial_states() (westpa.core.data_manager.WESTDataManager method)
get_segments() (westpa.analysis.trajectories.SegmentCollector method)
(westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_segments_by_id() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_state() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
get_steady_state() (in module westpa.core.kinetics.matrates)
get_summary_table() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_target_states() (westpa.core.data_manager.WESTDataManager method)
get_total_time() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
get_traceback() (westpa.work_managers.core.WMFuture method)
(westpa.work_managers.mpi.WMFuture method)
(westpa.work_managers.processes.WMFuture method)
(westpa.work_managers.serial.WMFuture method)
(westpa.work_managers.threads.WMFuture method)
(westpa.work_managers.zeromq.work_manager.WMFuture method)
get_traj_group() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
get_traj_len() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
get_trajectory_roots() (westpa.oldtools.aframe.TrajWalker method)
(westpa.oldtools.aframe.trajwalker.TrajWalker method)
(westpa.oldtools.aframe.transitions.TrajWalker method)
get_transitions_ds() (westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
get_typed() (westpa.core.yamlcfg.YAMLConfig method)
get_unused_initial_states() (westpa.core.data_manager.WESTDataManager method)
get_val() (westpa.work_managers.environment.WMEnvironment method)
get_weights() (westpa.core.data_manager.WESTDataManager method)
get_wtg_parent_array() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
getbuffer() (westpa.core.propagators.executable.BytesIO method)
getvalue() (westpa.core.propagators.executable.BytesIO method)
go() (westpa.cli.tools.ploterr.DirectKinetics method)
(westpa.cli.tools.ploterr.DirectStateprobs method)
(westpa.cli.tools.ploterr.GenericIntervalSubcommand method)
(westpa.cli.tools.ploterr.WESTMasterCommand method)
(westpa.cli.tools.ploterr.WESTSubcommand method)
(westpa.cli.tools.plothist.AveragePlotHist method)
(westpa.cli.tools.plothist.EvolutionPlotHist method)
(westpa.cli.tools.plothist.InstantPlotHist method)
(westpa.cli.tools.plothist.WESTMasterCommand method)
(westpa.cli.tools.plothist.WESTSubcommand method)
(westpa.cli.tools.w_assign.WAssign method)
(westpa.cli.tools.w_assign.WESTParallelTool method)
(westpa.cli.tools.w_bins.WBinTool method)
(westpa.cli.tools.w_bins.WESTTool method)
(westpa.cli.tools.w_crawl.WCrawl method)
(westpa.cli.tools.w_crawl.WESTParallelTool method)
(westpa.cli.tools.w_direct.DAll method)
(westpa.cli.tools.w_direct.DAverage method)
(westpa.cli.tools.w_direct.DKinAvg method)
(westpa.cli.tools.w_direct.DKinetics method)
(westpa.cli.tools.w_direct.DStateProbs method)
(westpa.cli.tools.w_direct.WESTMasterCommand method)
(westpa.cli.tools.w_direct.WESTParallelTool method)
(westpa.cli.tools.w_dumpsegs.WDumpSegs method)
(westpa.cli.tools.w_dumpsegs.WESTTool method)
(westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_eddist.WESTParallelTool method)
(westpa.cli.tools.w_fluxanl.WESTTool method)
(westpa.cli.tools.w_fluxanl.WFluxanlTool method)
(westpa.cli.tools.w_ipa.WESTParallelTool method)
(westpa.cli.tools.w_ipa.WIPI method)
(westpa.cli.tools.w_kinavg.DKinAvg method)
(westpa.cli.tools.w_kinavg.WESTMasterCommand method)
(westpa.cli.tools.w_kinavg.WESTParallelTool method)
(westpa.cli.tools.w_kinetics.DKinetics method)
(westpa.cli.tools.w_kinetics.WESTMasterCommand method)
(westpa.cli.tools.w_kinetics.WESTParallelTool method)
(westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.cli.tools.w_multi_west.WESTTool method)
(westpa.cli.tools.w_multi_west.WMultiWest method)
(westpa.cli.tools.w_ntop.WESTTool method)
(westpa.cli.tools.w_ntop.WNTopTool method)
(westpa.cli.tools.w_pdist.WESTParallelTool method)
(westpa.cli.tools.w_pdist.WPDist method)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix method)
(westpa.cli.tools.w_postanalysis_matrix.WESTMasterCommand method)
(westpa.cli.tools.w_postanalysis_matrix.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_reweight.RWAverage method)
(westpa.cli.tools.w_postanalysis_reweight.WESTMasterCommand method)
(westpa.cli.tools.w_postanalysis_reweight.WESTParallelTool method)
(westpa.cli.tools.w_red.WESTParallelTool method)
(westpa.cli.tools.w_red.WRed method)
(westpa.cli.tools.w_reweight.RWAll method)
(westpa.cli.tools.w_reweight.RWAverage method)
(westpa.cli.tools.w_reweight.RWMatrix method)
(westpa.cli.tools.w_reweight.RWRate method)
(westpa.cli.tools.w_reweight.RWStateProbs method)
(westpa.cli.tools.w_reweight.WESTMasterCommand method)
(westpa.cli.tools.w_reweight.WESTParallelTool method)
(westpa.cli.tools.w_select.WESTParallelTool method)
(westpa.cli.tools.w_select.WSelectTool method)
(westpa.cli.tools.w_stateprobs.DStateProbs method)
(westpa.cli.tools.w_stateprobs.WESTMasterCommand method)
(westpa.cli.tools.w_stateprobs.WESTParallelTool method)
(westpa.cli.tools.w_trace.WESTTool method)
(westpa.cli.tools.w_trace.WTraceTool method)
(westpa.tools.core.WESTMasterCommand method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.core.WESTParallelTool method)
(westpa.tools.core.WESTSubcommand method)
(westpa.tools.core.WESTTool method)
(westpa.tools.kinetics_tool.WESTSubcommand method)
(westpa.tools.WESTMasterCommand method)
(westpa.tools.WESTMultiTool method)
(westpa.tools.WESTParallelTool method)
(westpa.tools.WESTSubcommand method)
(westpa.tools.WESTTool method)
group_description (westpa.work_managers.environment.WMEnvironment attribute)
group_name (westpa.cli.tools.w_assign.WESTDSSynthesizer attribute)
(westpa.cli.tools.w_pdist.WESTDSSynthesizer attribute)
(westpa.cli.tools.w_pdist.WESTWDSSynthesizer attribute)
(westpa.tools.data_reader.WESTDSSynthesizer attribute)
(westpa.tools.data_reader.WESTWDSSynthesizer attribute)
(westpa.tools.WESTDSSynthesizer attribute)
(westpa.tools.WESTWDSSynthesizer attribute)
group_title (westpa.work_managers.environment.WMEnvironment attribute)
grouper() (in module westpa.core.binning.mab_manager)
(in module westpa.core.kinetics.rate_averaging)
(in module westpa.core.sim_manager)
H
H5File (in module westpa.cli.tools.w_red)
h5file (westpa.core.h5io.FileLinkedDSSpec property)
h5group (westpa.analysis.core.Iteration property)
handle_reconfigure_timeout() (westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorker method)
handle_result() (westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
handle_task_request() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
has_pointer() (westpa.core.h5io.WESTIterationFile method)
has_restart() (westpa.core.h5io.WESTIterationFile method)
has_target_states (westpa.analysis.core.Iteration property)
has_topology() (westpa.core.h5io.WESTIterationFile method)
hash_args() (westpa.cli.tools.w_ipa.WIPI method)
hashfunc() (westpa.core.binning.assign.BinMapper method)
HDF5MDTrajectory (class in westpa.analysis.trajectories)
HDF5TrajectoryFile (class in westpa.core.h5io)
help (westpa.cli.tools.w_ipa.WIPI property)
help_text (westpa.cli.tools.ploterr.DirectKinetics attribute)
(westpa.cli.tools.ploterr.DirectStateprobs attribute)
(westpa.cli.tools.ploterr.GenericIntervalSubcommand attribute)
(westpa.cli.tools.ploterr.ReweightKinetics attribute)
(westpa.cli.tools.ploterr.ReweightStateprobs attribute)
(westpa.cli.tools.ploterr.WESTSubcommand attribute)
(westpa.cli.tools.plothist.AveragePlotHist attribute)
(westpa.cli.tools.plothist.EvolutionPlotHist attribute)
(westpa.cli.tools.plothist.InstantPlotHist attribute)
(westpa.cli.tools.plothist.WESTSubcommand attribute)
(westpa.cli.tools.w_direct.DAll attribute)
(westpa.cli.tools.w_direct.DAverage attribute)
(westpa.cli.tools.w_direct.DKinAvg attribute)
(westpa.cli.tools.w_direct.DKinetics attribute)
(westpa.cli.tools.w_direct.DStateProbs attribute)
(westpa.cli.tools.w_kinavg.DKinAvg attribute)
(westpa.cli.tools.w_kinavg.WKinAvg attribute)
(westpa.cli.tools.w_kinetics.DKinetics attribute)
(westpa.cli.tools.w_kinetics.WKinetics attribute)
(westpa.cli.tools.w_postanalysis_matrix.PAMatrix attribute)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix attribute)
(westpa.cli.tools.w_postanalysis_reweight.PAAverage attribute)
(westpa.cli.tools.w_postanalysis_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWAll attribute)
(westpa.cli.tools.w_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWMatrix attribute)
(westpa.cli.tools.w_reweight.RWRate attribute)
(westpa.cli.tools.w_reweight.RWReweight attribute)
(westpa.cli.tools.w_reweight.RWStateProbs attribute)
(westpa.cli.tools.w_stateprobs.DStateProbs attribute)
(westpa.cli.tools.w_stateprobs.WStateProbs attribute)
(westpa.tools.core.WESTSubcommand attribute)
(westpa.tools.kinetics_tool.WESTSubcommand attribute)
(westpa.tools.WESTSubcommand attribute)
histnd() (in module westpa.cli.tools.w_eddist)
(in module westpa.cli.tools.w_pdist)
(in module westpa.fasthist)
I
idempotent_announcement_messages (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
IDENTIFY (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
identify() (westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorker method)
image_molecules() (westpa.core.h5io.Trajectory method)
import_() (in module westpa.core.h5io)
in_units_of() (in module westpa.core.h5io)
include_arg() (westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTToolComponent method)
include_help_command (westpa.cli.tools.ploterr.WESTMasterCommand attribute)
(westpa.cli.tools.plothist.WESTMasterCommand attribute)
(westpa.cli.tools.w_direct.WESTMasterCommand attribute)
(westpa.cli.tools.w_kinavg.WESTMasterCommand attribute)
(westpa.cli.tools.w_kinetics.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_matrix.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_reweight.WESTMasterCommand attribute)
(westpa.cli.tools.w_reweight.WESTMasterCommand attribute)
(westpa.cli.tools.w_stateprobs.WESTMasterCommand attribute)
(westpa.tools.core.WESTMasterCommand attribute)
(westpa.tools.WESTMasterCommand attribute)
incorporate() (westpa.oldtools.stats.accumulator.RunningStatsAccumulator method)
(westpa.oldtools.stats.RunningStatsAccumulator method)
index() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
index_dtype (in module westpa.cli.tools.w_assign)
(in module westpa.core.binning)
(in module westpa.core.binning.assign)
(in module westpa.core.kinetics.events)
(in module westpa.core.reweight.matrix)
(westpa.oldtools.aframe.TransitionEventAccumulator attribute)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator attribute)
initial (westpa.analysis.core.Walker property)
initial_pcoord() (westpa.cli.core.w_fork.Segment static method)
(westpa.cli.core.w_states.Segment static method)
(westpa.cli.core.w_succ.Segment static method)
(westpa.cli.tools.w_dumpsegs.Segment static method)
(westpa.cli.tools.w_trace.Segment static method)
(westpa.core.binning.mab_manager.Segment static method)
(westpa.core.data_manager.Segment static method)
(westpa.core.propagators.executable.Segment static method)
(westpa.core.segment.Segment static method)
(westpa.core.sim_manager.Segment static method)
(westpa.core.states.Segment static method)
(westpa.core.we_driver.Segment static method)
(westpa.oldtools.aframe.data_reader.Segment static method)
initial_state_id (westpa.cli.core.w_fork.Segment property)
(westpa.cli.core.w_states.Segment property)
(westpa.cli.core.w_succ.Segment property)
(westpa.cli.tools.w_dumpsegs.Segment property)
(westpa.cli.tools.w_trace.Segment property)
(westpa.core.binning.mab_manager.Segment property)
(westpa.core.data_manager.Segment property)
(westpa.core.propagators.executable.Segment property)
(westpa.core.segment.Segment property)
(westpa.core.sim_manager.Segment property)
(westpa.core.states.Segment property)
(westpa.core.we_driver.Segment property)
(westpa.oldtools.aframe.data_reader.Segment property)
initial_walkers (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Run property)
initialize() (in module westpa.cli.core.w_init)
(in module westpa.cli.core.w_states)
(westpa.cli.tools.w_crawl.WESTPACrawler method)
(westpa.core.systems.WESTSystem method)
(westpa.core.yamlcfg.YAMLSystem method)
initialize_simulation() (westpa.core.binning.BinlessSimManager method)
(westpa.core.binning.mab_manager.MABSimManager method)
(westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.binning.MABSimManager method)
(westpa.core.sim_manager.WESimManager method)
InitialState (class in westpa.cli.core.w_fork)
(class in westpa.cli.tools.w_trace)
(class in westpa.core.binning.mab_manager)
(class in westpa.core.data_manager)
(class in westpa.core.propagators.executable)
(class in westpa.core.sim_manager)
(class in westpa.core.states)
(class in westpa.core.we_driver)
initpoint_type (westpa.cli.core.w_fork.Segment property)
(westpa.cli.core.w_states.Segment property)
(westpa.cli.core.w_succ.Segment property)
(westpa.cli.tools.w_dumpsegs.Segment property)
(westpa.cli.tools.w_trace.Segment property)
(westpa.core.binning.mab_manager.Segment property)
(westpa.core.data_manager.Segment property)
(westpa.core.propagators.executable.Segment property)
(westpa.core.segment.Segment property)
(westpa.core.sim_manager.Segment property)
(westpa.core.states.Segment property)
(westpa.core.we_driver.Segment property)
(westpa.oldtools.aframe.data_reader.Segment property)
initpoint_type_names (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
initpoint_types (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
input_filename (westpa.cli.tools.ploterr.DirectKinetics attribute)
(westpa.cli.tools.ploterr.DirectStateprobs attribute)
(westpa.cli.tools.ploterr.ReweightKinetics attribute)
(westpa.cli.tools.ploterr.ReweightStateprobs attribute)
insert() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
install_sigint_handler() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
install_signal_handlers() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQCore method)
(westpa.work_managers.zeromq.ZMQWorker method)
InstantPlotHist (class in westpa.cli.tools.plothist)
internal_transport (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
intersection() (westpa.analysis.core.BinUnion method)
introduction (westpa.cli.tools.w_ipa.WIPI property)
invoke_callbacks() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
is_done() (westpa.work_managers.core.WMFuture method)
(westpa.work_managers.mpi.WMFuture method)
(westpa.work_managers.processes.WMFuture method)
(westpa.work_managers.serial.WMFuture method)
(westpa.work_managers.threads.WMFuture method)
(westpa.work_managers.zeromq.work_manager.WMFuture method)
is_master (westpa.work_managers.core.WorkManager property)
(westpa.work_managers.mpi.Worker property)
(westpa.work_managers.mpi.WorkManager property)
(westpa.work_managers.processes.WorkManager property)
(westpa.work_managers.serial.WorkManager property)
(westpa.work_managers.threads.WorkManager property)
(westpa.work_managers.zeromq.node.ZMQNode property)
(westpa.work_managers.zeromq.work_manager.WorkManager property)
(westpa.work_managers.zeromq.work_manager.ZMQNode property)
(westpa.work_managers.zeromq.work_manager.ZMQWorker property)
(westpa.work_managers.zeromq.worker.ZMQWorker property)
(westpa.work_managers.zeromq.ZMQNode property)
(westpa.work_managers.zeromq.ZMQWorker property)
is_npy() (westpa.oldtools.aframe.data_reader.ExtDataReaderMixin method)
(westpa.oldtools.aframe.ExtDataReaderMixin method)
is_within_directory() (in module westpa.core.h5io)
isatty() (westpa.core.propagators.executable.BytesIO method)
isiterable() (in module westpa.cli.tools.w_eddist)
(in module westpa.cli.tools.w_pdist)
islice (class in westpa.work_managers.core)
IsNode (class in westpa.work_managers.zeromq.core)
(class in westpa.work_managers.zeromq.node)
(class in westpa.work_managers.zeromq.work_manager)
istate (westpa.cli.tools.w_red.RateCalculator property)
istate_status_dtype (in module westpa.core.data_manager)
ISTATE_STATUS_FAILED (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
istate_status_names (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_STATUS_PENDING (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_STATUS_PREPARED (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
istate_statuses (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_TYPE_BASIS (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
istate_type_dtype (in module westpa.core.data_manager)
ISTATE_TYPE_GENERATED (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
istate_type_names (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_TYPE_RESTART (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_TYPE_START (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_TYPE_UNSET (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
istate_types (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
ISTATE_UNUSED (westpa.cli.core.w_fork.InitialState attribute)
(westpa.cli.tools.w_trace.InitialState attribute)
(westpa.core.binning.mab_manager.InitialState attribute)
(westpa.core.data_manager.InitialState attribute)
(westpa.core.propagators.executable.InitialState attribute)
(westpa.core.sim_manager.InitialState attribute)
(westpa.core.states.InitialState attribute)
(westpa.core.we_driver.InitialState attribute)
iter_block_iter() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
iter_entry() (westpa.core.h5io.IterBlockedDataset method)
iter_group_name() (westpa.core.data_manager.WESTDataManager method)
iter_label_values() (westpa.core.h5io.WESTTrajectory method)
iter_labels (westpa.core.h5io.WESTTrajectory property)
iter_object_name() (westpa.cli.tools.w_assign.WESTPAH5File method)
(westpa.core.h5io.WESTPAH5File method)
iter_range() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
iter_slice() (westpa.core.h5io.IterBlockedDataset method)
Iteration (class in westpa.analysis.core)
iteration (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
iteration() (westpa.analysis.core.Run method)
iterations (westpa.analysis.core.Run property)
IterBlockedDataset (class in westpa.core.h5io)
IterRangeMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.iter_range)
IterRangeSelection (class in westpa.cli.tools.w_crawl)
(class in westpa.cli.tools.w_fluxanl)
(class in westpa.cli.tools.w_ntop)
(class in westpa.cli.tools.w_pdist)
(class in westpa.cli.tools.w_select)
(class in westpa.tools)
(class in westpa.tools.iter_range)
(class in westpa.tools.kinetics_tool)
J
join() (westpa.core.h5io.Trajectory method)
(westpa.core.h5io.WESTTrajectory method)
(westpa.westext.weed.BinCluster.ClusterList method)
(westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
join_simple() (westpa.westext.weed.BinCluster.ClusterList method)
join_traj() (in module westpa.core.h5io)
K
keys() (westpa.cli.tools.w_ipa.WIPIDataset method)
(westpa.tools.KineticsIteration method)
(westpa.tools.wipi.KineticsIteration method)
(westpa.tools.wipi.WIPIDataset method)
(westpa.tools.WIPIDataset method)
kineticEnergy (westpa.core.h5io.Frames attribute)
KineticsAnalysisMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.kinetics)
KineticsIteration (class in westpa.tools)
(class in westpa.tools.wipi)
L
label_axes() (in module westpa.core.h5io)
label_values (westpa.core.h5io.WESTTrajectory property)
labeled_flux_to_rate() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.matrates)
labels (westpa.core.binning.assign.RecursiveBinMapper property)
(westpa.core.binning.RecursiveBinMapper property)
largest_allowed_weight (westpa.core.binning.mab_driver.WEDriver attribute)
(westpa.core.we_driver.WEDriver attribute)
linregress() (in module westpa.core.progress)
list_schemes (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
load() (westpa.core.h5io.Trajectory static method)
load_and_validate_data() (westpa.cli.tools.ploterr.GenericIntervalSubcommand method)
load_config_from_west() (westpa.cli.tools.w_assign.WAssign method)
load_module() (in module westpa.core.extloader)
load_npy_or_text() (in module westpa.oldtools.files)
(westpa.oldtools.aframe.data_reader.ExtDataReaderMixin method)
(westpa.oldtools.aframe.ExtDataReaderMixin method)
load_plugins() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
load_state_file() (westpa.cli.tools.w_assign.WAssign method)
load_states_from_function() (westpa.cli.tools.w_assign.WAssign method)
load_trajectory() (in module westpa.core.propagators.executable)
load_west() (in module westpa.core.h5io)
M
M1 (westpa.core.kinetics.rate_averaging.StreamingStats1D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStats2D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStatsTuple attribute)
M2 (westpa.core.kinetics.rate_averaging.StreamingStats1D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStats2D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStatsTuple attribute)
MABBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.mab)
(class in westpa.core.binning.mab_manager)
MABDriver (class in westpa.core.binning)
(class in westpa.core.binning.mab_driver)
MABSimManager (class in westpa.core.binning)
(class in westpa.core.binning.mab_manager)
main() (westpa.cli.tools.w_assign.WESTParallelTool method)
(westpa.cli.tools.w_bins.WESTTool method)
(westpa.cli.tools.w_crawl.WESTParallelTool method)
(westpa.cli.tools.w_direct.WESTParallelTool method)
(westpa.cli.tools.w_dumpsegs.WESTTool method)
(westpa.cli.tools.w_eddist.WESTParallelTool method)
(westpa.cli.tools.w_fluxanl.WESTTool method)
(westpa.cli.tools.w_ipa.WESTParallelTool method)
(westpa.cli.tools.w_kinavg.WESTParallelTool method)
(westpa.cli.tools.w_kinetics.WESTParallelTool method)
(westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.cli.tools.w_multi_west.WESTTool method)
(westpa.cli.tools.w_ntop.WESTTool method)
(westpa.cli.tools.w_pdist.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_matrix.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_reweight.WESTParallelTool method)
(westpa.cli.tools.w_red.WESTParallelTool method)
(westpa.cli.tools.w_reweight.WESTParallelTool method)
(westpa.cli.tools.w_select.WESTParallelTool method)
(westpa.cli.tools.w_stateprobs.WESTParallelTool method)
(westpa.cli.tools.w_trace.WESTTool method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.core.WESTParallelTool method)
(westpa.tools.core.WESTTool method)
(westpa.tools.WESTMultiTool method)
(westpa.tools.WESTParallelTool method)
(westpa.tools.WESTTool method)
make_image() (westpa.cli.tools.plothist.NonUniformImage method)
make_internal_endpoint() (westpa.work_managers.zeromq.core.ZMQCore class method)
(westpa.work_managers.zeromq.node.ZMQCore class method)
(westpa.work_managers.zeromq.work_manager.ZMQCore class method)
(westpa.work_managers.zeromq.worker.ZMQCore class method)
(westpa.work_managers.zeromq.ZMQCore class method)
make_ipc_endpoint() (westpa.work_managers.zeromq.core.ZMQCore class method)
(westpa.work_managers.zeromq.node.ZMQCore class method)
(westpa.work_managers.zeromq.work_manager.ZMQCore class method)
(westpa.work_managers.zeromq.worker.ZMQCore class method)
(westpa.work_managers.zeromq.ZMQCore class method)
make_molecules_whole() (westpa.core.h5io.Trajectory method)
make_parser() (westpa.cli.tools.w_bins.WESTTool method)
(westpa.cli.tools.w_dumpsegs.WESTTool method)
(westpa.cli.tools.w_fluxanl.WESTTool method)
(westpa.cli.tools.w_multi_west.WESTTool method)
(westpa.cli.tools.w_ntop.WESTTool method)
(westpa.cli.tools.w_trace.WESTTool method)
(westpa.tools.core.WESTTool method)
(westpa.tools.WESTTool method)
make_parser_and_process() (westpa.cli.tools.w_assign.WESTParallelTool method)
(westpa.cli.tools.w_bins.WESTTool method)
(westpa.cli.tools.w_crawl.WESTParallelTool method)
(westpa.cli.tools.w_direct.WESTParallelTool method)
(westpa.cli.tools.w_dumpsegs.WESTTool method)
(westpa.cli.tools.w_eddist.WESTParallelTool method)
(westpa.cli.tools.w_fluxanl.WESTTool method)
(westpa.cli.tools.w_ipa.WESTParallelTool method)
(westpa.cli.tools.w_kinavg.WESTParallelTool method)
(westpa.cli.tools.w_kinetics.WESTParallelTool method)
(westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.cli.tools.w_multi_west.WESTTool method)
(westpa.cli.tools.w_ntop.WESTTool method)
(westpa.cli.tools.w_pdist.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_matrix.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_reweight.WESTParallelTool method)
(westpa.cli.tools.w_red.WESTParallelTool method)
(westpa.cli.tools.w_reweight.WESTParallelTool method)
(westpa.cli.tools.w_select.WESTParallelTool method)
(westpa.cli.tools.w_stateprobs.WESTParallelTool method)
(westpa.cli.tools.w_trace.WESTTool method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.core.WESTParallelTool method)
(westpa.tools.core.WESTTool method)
(westpa.tools.WESTMultiTool method)
(westpa.tools.WESTParallelTool method)
(westpa.tools.WESTTool method)
make_tcp_endpoint() (westpa.work_managers.zeromq.core.ZMQCore class method)
(westpa.work_managers.zeromq.node.ZMQCore class method)
(westpa.work_managers.zeromq.work_manager.ZMQCore class method)
(westpa.work_managers.zeromq.worker.ZMQCore class method)
(westpa.work_managers.zeromq.ZMQCore class method)
make_work_manager() (in module westpa.cli.core.w_init)
(in module westpa.cli.core.w_run)
(in module westpa.cli.core.w_states)
(in module westpa.work_managers)
(in module westpa.work_managers.environment)
(westpa.work_managers.environment.WMEnvironment method)
makepath() (in module westpa.core.data_manager)
(westpa.core.data_manager.ExecutablePropagator static method)
(westpa.core.propagators.executable.ExecutablePropagator static method)
Manager (class in westpa.work_managers.mpi)
map_binless() (in module westpa.core.binning)
map_mab() (in module westpa.core.binning)
(in module westpa.core.binning.mab)
mapper_from_dict() (in module westpa.tools)
(in module westpa.tools.binning)
mapper_from_expr() (in module westpa.tools.binning)
(westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
mapper_from_function() (in module westpa.tools.binning)
mapper_from_hdf5() (in module westpa.tools.binning)
mapper_from_system() (in module westpa.tools.binning)
mapper_from_yaml() (in module westpa.tools.binning)
MASTER_BEACON (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
max (westpa.core.sim_manager.timedelta attribute)
max_acc (westpa.oldtools.aframe.TransitionEventAccumulator attribute)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator attribute)
max_iter_segs_in_range() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
maxlen (westpa.work_managers.mpi.deque attribute)
(westpa.work_managers.zeromq.work_manager.deque attribute)
mcbs_ci() (in module westpa.mclib)
mcbs_ci_correl() (in module westpa.cli.tools.w_direct)
(in module westpa.cli.tools.w_reweight)
(in module westpa.mclib)
mcbs_correltime() (in module westpa.mclib)
MCBSMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.mcbs)
mean (westpa.core.kinetics.rate_averaging.StreamingStats1D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStats2D attribute)
mean() (westpa.oldtools.stats.accumulator.RunningStatsAccumulator method)
(westpa.oldtools.stats.edfs.EDF method)
(westpa.oldtools.stats.RunningStatsAccumulator method)
median() (westpa.oldtools.stats.edfs.EDF method)
Message (class in westpa.work_managers.zeromq.core)
(class in westpa.work_managers.zeromq.node)
(class in westpa.work_managers.zeromq.work_manager)
(class in westpa.work_managers.zeromq.worker)
message_validation() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
microseconds (westpa.core.sim_manager.timedelta attribute)
min (westpa.core.sim_manager.timedelta attribute)
module
westpa.analysis.core
westpa.analysis.statistics
westpa.analysis.trajectories
westpa.cli.core.w_fork
westpa.cli.core.w_init
westpa.cli.core.w_run
westpa.cli.core.w_states
westpa.cli.core.w_succ
westpa.cli.core.w_truncate
westpa.cli.tools.ploterr
westpa.cli.tools.plothist
westpa.cli.tools.w_assign
westpa.cli.tools.w_bins
westpa.cli.tools.w_crawl
westpa.cli.tools.w_direct
westpa.cli.tools.w_dumpsegs
westpa.cli.tools.w_eddist
westpa.cli.tools.w_fluxanl
westpa.cli.tools.w_ipa
westpa.cli.tools.w_kinavg
westpa.cli.tools.w_kinetics
westpa.cli.tools.w_multi_west
westpa.cli.tools.w_ntop
westpa.cli.tools.w_pdist
westpa.cli.tools.w_postanalysis_matrix
westpa.cli.tools.w_postanalysis_reweight
westpa.cli.tools.w_red
westpa.cli.tools.w_reweight
westpa.cli.tools.w_select
westpa.cli.tools.w_stateprobs
westpa.cli.tools.w_trace
westpa.core
westpa.core.binning
westpa.core.binning.assign
,
[1]
westpa.core.binning.bins
,
[1]
westpa.core.binning.mab
westpa.core.binning.mab_driver
westpa.core.binning.mab_manager
westpa.core.data_manager
westpa.core.extloader
westpa.core.h5io
westpa.core.kinetics
westpa.core.kinetics.events
westpa.core.kinetics.matrates
westpa.core.kinetics.rate_averaging
westpa.core.progress
westpa.core.propagators
westpa.core.propagators.executable
westpa.core.reweight
westpa.core.reweight.matrix
westpa.core.segment
westpa.core.sim_manager
westpa.core.states
westpa.core.systems
westpa.core.textio
westpa.core.we_driver
westpa.core.wm_ops
westpa.core.yamlcfg
,
[1]
westpa.fasthist
westpa.mclib
westpa.oldtools
westpa.oldtools.aframe
westpa.oldtools.aframe.atool
westpa.oldtools.aframe.base_mixin
westpa.oldtools.aframe.binning
westpa.oldtools.aframe.data_reader
westpa.oldtools.aframe.iter_range
westpa.oldtools.aframe.kinetics
westpa.oldtools.aframe.mcbs
westpa.oldtools.aframe.output
westpa.oldtools.aframe.plotting
westpa.oldtools.aframe.trajwalker
westpa.oldtools.aframe.transitions
westpa.oldtools.cmds
westpa.oldtools.files
westpa.oldtools.miscfn
westpa.oldtools.stats
westpa.oldtools.stats.accumulator
westpa.oldtools.stats.edfs
westpa.oldtools.stats.mcbs
westpa.tools
westpa.tools.binning
westpa.tools.core
westpa.tools.data_reader
westpa.tools.dtypes
westpa.tools.iter_range
westpa.tools.kinetics_tool
westpa.tools.plot
westpa.tools.progress
westpa.tools.selected_segs
westpa.tools.wipi
westpa.trajtree
westpa.trajtree.trajtree
westpa.westext
westpa.westext.adaptvoronoi
westpa.westext.adaptvoronoi.adaptVor_driver
westpa.westext.weed
westpa.westext.weed.BinCluster
westpa.westext.weed.ProbAdjustEquil
westpa.westext.weed.UncertMath
westpa.westext.weed.weed_driver
westpa.westext.wess
westpa.westext.wess.ProbAdjust
westpa.westext.wess.wess_driver
westpa.work_managers
westpa.work_managers.core
westpa.work_managers.environment
westpa.work_managers.mpi
westpa.work_managers.processes
westpa.work_managers.serial
westpa.work_managers.threads
westpa.work_managers.zeromq
westpa.work_managers.zeromq.core
westpa.work_managers.zeromq.node
westpa.work_managers.zeromq.work_manager
westpa.work_managers.zeromq.worker
moment() (westpa.oldtools.stats.edfs.EDF method)
mouseover (westpa.cli.tools.plothist.NonUniformImage attribute)
MPIWorkManager (class in westpa.work_managers.mpi)
MultiDSSpec (class in westpa.core.h5io)
(class in westpa.tools.data_reader)
N
n (westpa.core.kinetics.rate_averaging.StreamingStats1D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStats2D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStatsTuple attribute)
n_atoms (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
n_chains (westpa.core.h5io.Trajectory property)
n_frames (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
n_istates_needed (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
n_iter (westpa.trajtree.trajtree.trajnode attribute)
n_iter_blocks() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
n_iter_dtype (in module westpa.cli.core.w_fork)
(in module westpa.cli.tools.w_fluxanl)
(in module westpa.cli.tools.w_multi_west)
(in module westpa.cli.tools.w_ntop)
(in module westpa.cli.tools.w_select)
(in module westpa.cli.tools.w_trace)
(in module westpa.core.data_manager)
(in module westpa.tools.dtypes)
n_iters (westpa.cli.tools.w_red.RateCalculator property)
n_recycled_segs (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
n_residues (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
n_workers (westpa.work_managers.zeromq.work_manager.ZMQWorkManager property)
(westpa.work_managers.zeromq.ZMQWorkManager property)
NAK (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
namedtuple() (in module westpa.core.kinetics.rate_averaging)
nested_to_flat_matrix() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.matrates)
nested_to_flat_vector() (in module westpa.core.kinetics)
(in module westpa.core.kinetics.matrates)
new_iteration() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.we_driver.WEDriver method)
new_operation() (westpa.core.progress.ProgressIndicator method)
(westpa.tools.progress.ProgressIndicator method)
new_pcoord_array() (westpa.core.systems.WESTSystem method)
(westpa.core.yamlcfg.YAMLSystem method)
new_region_set() (westpa.core.systems.WESTSystem method)
(westpa.core.yamlcfg.YAMLSystem method)
NewWeightEntry (class in westpa.cli.tools.w_fluxanl)
(class in westpa.core.data_manager)
(class in westpa.core.we_driver)
next (westpa.analysis.core.Iteration property)
next_expiration() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
next_expiration_in() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
next_iter_assignments (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
next_iter_segments (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
NonUniformImage (class in westpa.cli.tools.plothist)
nop() (in module westpa.core.progress)
NopMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
(class in westpa.core.systems)
(class in westpa.core.yamlcfg)
normalize_dataset_options() (in module westpa.core.data_manager)
normhistnd() (in module westpa.cli.tools.plothist)
(in module westpa.cli.tools.w_eddist)
(in module westpa.cli.tools.w_pdist)
(in module westpa.fasthist)
npy_data_loader() (in module westpa.core.propagators.executable)
npy_to_h5dataset() (westpa.oldtools.aframe.data_reader.ExtDataReaderMixin method)
(westpa.oldtools.aframe.ExtDataReaderMixin method)
num_bins (westpa.analysis.core.Iteration property)
num_iterations (westpa.analysis.core.Run property)
num_segments (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Run property)
num_snapshots (westpa.analysis.core.Walker property)
num_walkers (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Run property)
NumericTextOutputFormatter (class in westpa.core.textio)
nw_source_dtype (in module westpa.core.data_manager)
NW_SOURCE_RECYCLED (westpa.cli.tools.w_fluxanl.NewWeightEntry attribute)
(westpa.core.data_manager.NewWeightEntry attribute)
(westpa.core.we_driver.NewWeightEntry attribute)
O
open() (westpa.analysis.core.Run class method)
(westpa.cli.tools.w_assign.WESTDataReader method)
(westpa.cli.tools.w_bins.WESTDataReader method)
(westpa.cli.tools.w_crawl.WESTDataReader method)
(westpa.cli.tools.w_dumpsegs.WESTDataReader method)
(westpa.cli.tools.w_fluxanl.WESTDataReader method)
(westpa.cli.tools.w_ipa.WESTDataReader method)
(westpa.cli.tools.w_ntop.WESTDataReader method)
(westpa.cli.tools.w_pdist.WESTDataReader method)
(westpa.cli.tools.w_select.WESTDataReader method)
(westpa.cli.tools.w_trace.WESTDataReader method)
(westpa.tools.data_reader.WESTDataReader method)
(westpa.tools.kinetics_tool.WESTDataReader method)
(westpa.tools.WESTDataReader method)
open_analysis_backing() (westpa.cli.core.w_succ.WESTAnalysisTool method)
(westpa.oldtools.aframe.atool.WESTAnalysisTool method)
(westpa.oldtools.aframe.WESTAnalysisTool method)
open_assignments() (westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.tools.kinetics_tool.AverageCommands method)
open_backing() (westpa.core.data_manager.WESTDataManager method)
open_files() (westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_direct.DKinetics method)
(westpa.cli.tools.w_kinetics.DKinetics method)
(westpa.cli.tools.w_multi_west.WMultiWest method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.tools.kinetics_tool.AverageCommands method)
openmm_boxes() (westpa.core.h5io.Trajectory method)
openmm_positions() (westpa.core.h5io.Trajectory method)
operation (westpa.core.progress.ProgressIndicator property)
(westpa.tools.progress.ProgressIndicator property)
output_format_version (westpa.cli.tools.w_fluxanl.WFluxanlTool attribute)
output_map() (in module westpa.core.binning.assign)
output_tdat_chunksize (westpa.oldtools.aframe.TransitionEventAccumulator attribute)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator attribute)
P
PAAverage (class in westpa.cli.tools.w_postanalysis_reweight)
PAMatrix (class in westpa.cli.tools.w_postanalysis_matrix)
pare_basis_initial_states() (in module westpa.core.binning.mab_manager)
(in module westpa.core.states)
parent (westpa.analysis.core.Walker property)
parent_id_dsspec (westpa.cli.tools.w_assign.WESTDataReader property)
(westpa.cli.tools.w_bins.WESTDataReader property)
(westpa.cli.tools.w_crawl.WESTDataReader property)
(westpa.cli.tools.w_dumpsegs.WESTDataReader property)
(westpa.cli.tools.w_fluxanl.WESTDataReader property)
(westpa.cli.tools.w_ipa.WESTDataReader property)
(westpa.cli.tools.w_ntop.WESTDataReader property)
(westpa.cli.tools.w_pdist.WESTDataReader property)
(westpa.cli.tools.w_select.WESTDataReader property)
(westpa.cli.tools.w_trace.WESTDataReader property)
(westpa.tools.data_reader.WESTDataReader property)
(westpa.tools.kinetics_tool.WESTDataReader property)
(westpa.tools.WESTDataReader property)
parent_ids (westpa.core.h5io.WESTTrajectory property)
parse_bin_range() (westpa.oldtools.aframe.kinetics.KineticsAnalysisMixin method)
(westpa.oldtools.aframe.KineticsAnalysisMixin method)
parse_binspec() (westpa.cli.tools.w_eddist.WEDDist static method)
(westpa.cli.tools.w_pdist.WPDist static method)
parse_cmdline_states() (westpa.cli.tools.w_assign.WAssign method)
parse_dataset_string() (westpa.cli.tools.w_trace.WTraceTool method)
parse_dimspec() (westpa.cli.tools.plothist.PlotHistBase method)
parse_from_yaml() (westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.WESTMultiTool method)
parse_int_list() (in module westpa.oldtools.aframe.data_reader)
(in module westpa.oldtools.miscfn)
parse_pcoord_value() (in module westpa.cli.tools.w_assign)
parse_range() (westpa.cli.tools.ploterr.CommonPloterrs method)
(westpa.cli.tools.plothist.PlotHistBase method)
parse_segsel_file() (westpa.tools.SegSelector method)
(westpa.tools.selected_segs.SegSelector method)
PassiveMultiTimer (class in westpa.work_managers.zeromq.core)
(class in westpa.work_managers.zeromq.node)
(class in westpa.work_managers.zeromq.work_manager)
(class in westpa.work_managers.zeromq.worker)
PassiveTimer (class in westpa.work_managers.zeromq.core)
past (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
pcoord_formats (westpa.cli.tools.w_trace.WTraceTool attribute)
pcoord_loader() (in module westpa.core.propagators.executable)
pcoords (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Walker property)
(westpa.core.h5io.WESTTrajectory property)
pickle_and_hash() (westpa.core.binning.assign.BinMapper method)
pickle_data_loader() (in module westpa.core.propagators.executable)
PickleError
,
[1]
PiecewiseBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
plot() (westpa.cli.tools.ploterr.Plotter method)
(westpa.cli.tools.w_ipa.Plotter method)
(westpa.tools.plot.Plotter method)
(westpa.tools.Plotter method)
(westpa.tools.wipi.Plotter method)
plot_color() (westpa.cli.tools.ploterr.DirectStateprobs method)
plot_flux() (westpa.cli.tools.ploterr.DirectKinetics method)
plot_pop() (westpa.cli.tools.ploterr.DirectStateprobs method)
plot_rate() (westpa.cli.tools.ploterr.DirectKinetics method)
PloterrsTool (class in westpa.cli.tools.ploterr)
PlotHistBase (class in westpa.cli.tools.plothist)
PlotHistTool (class in westpa.cli.tools.plothist)
PlotSupports2D (class in westpa.cli.tools.plothist)
Plotter (class in westpa.cli.tools.ploterr)
(class in westpa.cli.tools.w_ipa)
(class in westpa.tools)
(class in westpa.tools.plot)
(class in westpa.tools.wipi)
PlottingMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.plotting)
pop() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
pop_assign() (in module westpa.core.kinetics.rate_averaging)
pop_output_filename (westpa.cli.tools.ploterr.DirectStateprobs attribute)
(westpa.cli.tools.ploterr.ReweightStateprobs attribute)
popleft() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
populate_initial() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.we_driver.WEDriver method)
populations (westpa.cli.tools.w_red.RateCalculator property)
post_iter() (in module westpa.core.wm_ops)
post_propagation() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
post_we() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
potentialEnergy (westpa.core.h5io.Frames attribute)
pre_propagation() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
pre_we() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
preload_config_files (westpa.core.yamlcfg.YAMLConfig attribute)
prep_iter() (in module westpa.core.wm_ops)
prepare_backing() (westpa.core.data_manager.WESTDataManager method)
prepare_file_system() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
prepare_iteration() (westpa.core.binning.BinlessSimManager method)
(westpa.core.binning.mab_manager.MABSimManager method)
(westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.binning.MABSimManager method)
(westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.core.propagators.executable.ExecutablePropagator method)
(westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
(westpa.core.sim_manager.WESimManager method)
prepare_new_iteration() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
(westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
(westpa.westext.weed.weed_driver.WEEDDriver method)
(westpa.westext.weed.WEEDDriver method)
(westpa.westext.wess.wess_driver.WESSDriver method)
(westpa.westext.wess.WESSDriver method)
prepare_run() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.core.sim_manager.WESimManager method)
(westpa.core.systems.WESTSystem method)
(westpa.core.yamlcfg.YAMLSystem method)
prepare_segment_restarts() (westpa.core.data_manager.WESTDataManager method)
prev (westpa.analysis.core.Iteration property)
print_averages() (westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.tools.kinetics_tool.AverageCommands method)
prob_adjust() (in module westpa.westext.wess)
(in module westpa.westext.wess.ProbAdjust)
(in module westpa.westext.wess.wess_driver)
probAdjustEquil() (in module westpa.westext.weed)
(in module westpa.westext.weed.ProbAdjustEquil)
(in module westpa.westext.weed.weed_driver)
process_all_args() (westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTToolComponent method)
process_args() (westpa.cli.core.w_succ.WESTAnalysisTool method)
(westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.cli.tools.ploterr.CommonPloterrs method)
(westpa.cli.tools.ploterr.DirectKinetics method)
(westpa.cli.tools.ploterr.DirectStateprobs method)
(westpa.cli.tools.ploterr.GenericIntervalSubcommand method)
(westpa.cli.tools.ploterr.ProgressIndicatorComponent method)
(westpa.cli.tools.ploterr.WESTMasterCommand method)
(westpa.cli.tools.plothist.AveragePlotHist method)
(westpa.cli.tools.plothist.EvolutionPlotHist method)
(westpa.cli.tools.plothist.InstantPlotHist method)
(westpa.cli.tools.plothist.PlotHistBase method)
(westpa.cli.tools.plothist.PlotSupports2D method)
(westpa.cli.tools.plothist.WESTMasterCommand method)
(westpa.cli.tools.w_assign.BinMappingComponent method)
(westpa.cli.tools.w_assign.ProgressIndicatorComponent method)
(westpa.cli.tools.w_assign.WAssign method)
(westpa.cli.tools.w_assign.WESTDataReader method)
(westpa.cli.tools.w_assign.WESTDSSynthesizer method)
(westpa.cli.tools.w_assign.WESTParallelTool method)
(westpa.cli.tools.w_bins.BinMappingComponent method)
(westpa.cli.tools.w_bins.WBinTool method)
(westpa.cli.tools.w_bins.WESTDataReader method)
(westpa.cli.tools.w_bins.WESTTool method)
(westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_crawl.ProgressIndicatorComponent method)
(westpa.cli.tools.w_crawl.WCrawl method)
(westpa.cli.tools.w_crawl.WESTDataReader method)
(westpa.cli.tools.w_crawl.WESTParallelTool method)
(westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_direct.WESTKineticsBase method)
(westpa.cli.tools.w_direct.WESTMasterCommand method)
(westpa.cli.tools.w_direct.WESTParallelTool method)
(westpa.cli.tools.w_dumpsegs.WDumpSegs method)
(westpa.cli.tools.w_dumpsegs.WESTDataReader method)
(westpa.cli.tools.w_dumpsegs.WESTTool method)
(westpa.cli.tools.w_eddist.ProgressIndicatorComponent method)
(westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_eddist.WESTParallelTool method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.WESTDataReader method)
(westpa.cli.tools.w_fluxanl.WESTTool method)
(westpa.cli.tools.w_fluxanl.WFluxanlTool method)
(westpa.cli.tools.w_ipa.ProgressIndicatorComponent method)
(westpa.cli.tools.w_ipa.WESTDataReader method)
(westpa.cli.tools.w_ipa.WESTParallelTool method)
(westpa.cli.tools.w_ipa.WIPI method)
(westpa.cli.tools.w_kinavg.WESTMasterCommand method)
(westpa.cli.tools.w_kinavg.WESTParallelTool method)
(westpa.cli.tools.w_kinetics.WESTMasterCommand method)
(westpa.cli.tools.w_kinetics.WESTParallelTool method)
(westpa.cli.tools.w_multi_west.ProgressIndicatorComponent method)
(westpa.cli.tools.w_multi_west.WESTMultiTool method)
(westpa.cli.tools.w_multi_west.WESTTool method)
(westpa.cli.tools.w_multi_west.WMultiWest method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_ntop.ProgressIndicatorComponent method)
(westpa.cli.tools.w_ntop.WESTDataReader method)
(westpa.cli.tools.w_ntop.WESTTool method)
(westpa.cli.tools.w_ntop.WNTopTool method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_pdist.ProgressIndicatorComponent method)
(westpa.cli.tools.w_pdist.WESTDataReader method)
(westpa.cli.tools.w_pdist.WESTDSSynthesizer method)
(westpa.cli.tools.w_pdist.WESTParallelTool method)
(westpa.cli.tools.w_pdist.WESTWDSSynthesizer method)
(westpa.cli.tools.w_pdist.WPDist method)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix method)
(westpa.cli.tools.w_postanalysis_matrix.WESTMasterCommand method)
(westpa.cli.tools.w_postanalysis_matrix.WESTParallelTool method)
(westpa.cli.tools.w_postanalysis_reweight.WESTMasterCommand method)
(westpa.cli.tools.w_postanalysis_reweight.WESTParallelTool method)
(westpa.cli.tools.w_red.WESTParallelTool method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.cli.tools.w_reweight.RWMatrix method)
(westpa.cli.tools.w_reweight.RWReweight method)
(westpa.cli.tools.w_reweight.WESTKineticsBase method)
(westpa.cli.tools.w_reweight.WESTMasterCommand method)
(westpa.cli.tools.w_reweight.WESTParallelTool method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.cli.tools.w_select.ProgressIndicatorComponent method)
(westpa.cli.tools.w_select.WESTDataReader method)
(westpa.cli.tools.w_select.WESTParallelTool method)
(westpa.cli.tools.w_select.WSelectTool method)
(westpa.cli.tools.w_stateprobs.WESTMasterCommand method)
(westpa.cli.tools.w_stateprobs.WESTParallelTool method)
(westpa.cli.tools.w_trace.WESTDataReader method)
(westpa.cli.tools.w_trace.WESTTool method)
(westpa.cli.tools.w_trace.WTraceTool method)
(westpa.oldtools.aframe.AnalysisMixin method)
(westpa.oldtools.aframe.atool.WESTAnalysisTool method)
(westpa.oldtools.aframe.base_mixin.AnalysisMixin method)
(westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.binning.AnalysisMixin method)
(westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
(westpa.oldtools.aframe.data_reader.AnalysisMixin method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
(westpa.oldtools.aframe.data_reader.ExtDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.ExtDataReaderMixin method)
(westpa.oldtools.aframe.iter_range.AnalysisMixin method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.oldtools.aframe.kinetics.AnalysisMixin method)
(westpa.oldtools.aframe.kinetics.KineticsAnalysisMixin method)
(westpa.oldtools.aframe.KineticsAnalysisMixin method)
(westpa.oldtools.aframe.mcbs.AnalysisMixin method)
(westpa.oldtools.aframe.mcbs.MCBSMixin method)
(westpa.oldtools.aframe.MCBSMixin method)
(westpa.oldtools.aframe.output.AnalysisMixin method)
(westpa.oldtools.aframe.plotting.AnalysisMixin method)
(westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.AnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.WESTAnalysisTool method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
(westpa.tools.BinMappingComponent method)
(westpa.tools.binning.BinMappingComponent method)
(westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTMasterCommand method)
(westpa.tools.core.WESTMultiTool method)
(westpa.tools.core.WESTParallelTool method)
(westpa.tools.core.WESTTool method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTDataReader method)
(westpa.tools.data_reader.WESTDSSynthesizer method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.data_reader.WESTWDSSynthesizer method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.AverageCommands method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
(westpa.tools.kinetics_tool.ProgressIndicatorComponent method)
(westpa.tools.kinetics_tool.WESTDataReader method)
(westpa.tools.kinetics_tool.WESTKineticsBase method)
(westpa.tools.progress.ProgressIndicatorComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.ProgressIndicatorComponent method)
(westpa.tools.SegSelector method)
(westpa.tools.selected_segs.SegSelector method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTDataReader method)
(westpa.tools.WESTDSSynthesizer method)
(westpa.tools.WESTMasterCommand method)
(westpa.tools.WESTMultiTool method)
(westpa.tools.WESTParallelTool method)
(westpa.tools.WESTTool method)
(westpa.tools.WESTToolComponent method)
(westpa.tools.WESTWDSSynthesizer method)
process_common_output_args() (westpa.cli.core.w_succ.CommonOutputMixin method)
(westpa.oldtools.aframe.CommonOutputMixin method)
(westpa.oldtools.aframe.output.CommonOutputMixin method)
process_config() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.core.sim_manager.WESimManager method)
(westpa.core.we_driver.WEDriver method)
process_iter_chunk() (in module westpa.core.kinetics.rate_averaging)
process_iter_result() (westpa.cli.tools.w_crawl.WESTPACrawler method)
process_wm_args() (in module westpa.work_managers.environment)
(westpa.work_managers.environment.WMEnvironment method)
ProcessWorkManager (class in westpa.work_managers)
(class in westpa.work_managers.processes)
prog (westpa.cli.tools.ploterr.PloterrsTool attribute)
(westpa.cli.tools.plothist.PlotHistTool attribute)
(westpa.cli.tools.w_assign.WAssign attribute)
(westpa.cli.tools.w_bins.WBinTool attribute)
(westpa.cli.tools.w_bins.WESTTool attribute)
(westpa.cli.tools.w_crawl.WCrawl attribute)
(westpa.cli.tools.w_direct.WDirect attribute)
(westpa.cli.tools.w_dumpsegs.WDumpSegs attribute)
(westpa.cli.tools.w_dumpsegs.WESTTool attribute)
(westpa.cli.tools.w_eddist.WEDDist attribute)
(westpa.cli.tools.w_fluxanl.WESTTool attribute)
(westpa.cli.tools.w_fluxanl.WFluxanlTool attribute)
(westpa.cli.tools.w_kinavg.WDirect attribute)
(westpa.cli.tools.w_kinetics.WDirect attribute)
(westpa.cli.tools.w_multi_west.WESTTool attribute)
(westpa.cli.tools.w_multi_west.WMultiWest attribute)
(westpa.cli.tools.w_ntop.WESTTool attribute)
(westpa.cli.tools.w_ntop.WNTopTool attribute)
(westpa.cli.tools.w_pdist.WPDist attribute)
(westpa.cli.tools.w_postanalysis_matrix.WReweight attribute)
(westpa.cli.tools.w_postanalysis_reweight.WReweight attribute)
(westpa.cli.tools.w_red.WRed attribute)
(westpa.cli.tools.w_reweight.WReweight attribute)
(westpa.cli.tools.w_select.WSelectTool attribute)
(westpa.cli.tools.w_stateprobs.WDirect attribute)
(westpa.cli.tools.w_trace.WESTTool attribute)
(westpa.cli.tools.w_trace.WTraceTool attribute)
(westpa.tools.core.WESTTool attribute)
(westpa.tools.WESTTool attribute)
progress (westpa.core.progress.ProgressIndicator property)
(westpa.tools.progress.ProgressIndicator property)
ProgressIndicator (class in westpa.core.progress)
(class in westpa.tools.progress)
ProgressIndicatorComponent (class in westpa.cli.tools.ploterr)
(class in westpa.cli.tools.w_assign)
(class in westpa.cli.tools.w_crawl)
(class in westpa.cli.tools.w_eddist)
(class in westpa.cli.tools.w_ipa)
(class in westpa.cli.tools.w_multi_west)
(class in westpa.cli.tools.w_ntop)
(class in westpa.cli.tools.w_pdist)
(class in westpa.cli.tools.w_select)
(class in westpa.tools)
(class in westpa.tools.kinetics_tool)
(class in westpa.tools.progress)
propagate() (in module westpa.core.wm_ops)
(westpa.core.binning.BinlessSimManager method)
(westpa.core.binning.mab_manager.MABSimManager method)
(westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.binning.MABSimManager method)
(westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
(westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
(westpa.core.sim_manager.WESimManager method)
PropagationError
PROTOCOL_MAJOR (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
PROTOCOL_MINOR (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
PROTOCOL_UPDATE (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
PROTOCOL_VERSION (westpa.work_managers.zeromq.core.ZMQCore attribute)
(westpa.work_managers.zeromq.node.ZMQCore attribute)
(westpa.work_managers.zeromq.work_manager.ZMQCore attribute)
(westpa.work_managers.zeromq.worker.ZMQCore attribute)
(westpa.work_managers.zeromq.ZMQCore attribute)
Q
quantile() (westpa.oldtools.stats.edfs.EDF method)
quantiles() (westpa.oldtools.stats.edfs.EDF method)
R
random_val_env_vars() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
randomState (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
randport() (in module westpa.work_managers.zeromq.core)
(in module westpa.work_managers.zeromq.work_manager)
rate_output_filename (westpa.cli.tools.ploterr.DirectKinetics attribute)
(westpa.cli.tools.ploterr.ReweightKinetics attribute)
RateAverager (class in westpa.core.kinetics)
(class in westpa.core.kinetics.rate_averaging)
(class in westpa.westext.weed.weed_driver)
(class in westpa.westext.wess.wess_driver)
RateCalculator (class in westpa.cli.tools.w_red)
read() (westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.h5io.WESTIterationFile method)
(westpa.core.propagators.executable.BytesIO method)
read1() (westpa.core.propagators.executable.BytesIO method)
read_as_traj() (westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.h5io.WESTIterationFile method)
read_data() (westpa.core.h5io.WESTIterationFile method)
read_host_info() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager class method)
(westpa.work_managers.zeromq.ZMQWorkManager class method)
read_restart() (westpa.core.h5io.WESTIterationFile method)
readable() (westpa.core.propagators.executable.BytesIO method)
readinto() (westpa.core.propagators.executable.BytesIO method)
readline() (westpa.core.propagators.executable.BytesIO method)
readlines() (westpa.core.propagators.executable.BytesIO method)
rebin_current() (westpa.core.binning.mab_driver.WEDriver method)
(westpa.core.we_driver.WEDriver method)
recip() (westpa.westext.weed.UncertMath.UncertContainer method)
RECONFIGURE_TIMEOUT (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
record_data_binhash() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
record_data_iter_range() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
record_data_iter_step() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
record_transition_data() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
rectilinear_assign() (in module westpa.core.binning.assign)
RectilinearBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
(class in westpa.tools.binning)
RecursiveBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
recv_ack() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
recv_all() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
recv_message() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
recycled (westpa.analysis.core.Walker property)
recycled_walkers (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Run property)
recycling_segments (westpa.core.binning.mab_driver.WEDriver property)
(westpa.core.we_driver.WEDriver property)
reduce_array() (in module westpa.westext.wess.wess_driver)
reference (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
register_callback() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
relpath() (in module westpa.core.data_manager)
remove() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
remove_ipc_endpoints() (westpa.work_managers.zeromq.core.ZMQCore class method)
(westpa.work_managers.zeromq.node.ZMQCore class method)
(westpa.work_managers.zeromq.work_manager.ZMQCore class method)
(westpa.work_managers.zeromq.worker.ZMQCore class method)
(westpa.work_managers.zeromq.ZMQCore class method)
remove_solvent() (westpa.core.h5io.Trajectory method)
remove_timer() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
remove_worker() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
replace_dataset() (westpa.cli.tools.w_assign.WESTPAH5File method)
(westpa.core.h5io.WESTPAH5File method)
report_basis_states() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
report_bin_statistics() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
report_target_states() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
request_task() (westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorker method)
require() (westpa.core.yamlcfg.YAMLConfig method)
require_analysis_group() (westpa.cli.core.w_succ.WESTAnalysisTool method)
(westpa.oldtools.aframe.atool.WESTAnalysisTool method)
(westpa.oldtools.aframe.WESTAnalysisTool method)
require_bf_h5file() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
require_bin_assignments() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
require_binning_group() (westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
require_dataset_from_dsopts() (in module westpa.core.data_manager)
require_iter_group() (westpa.cli.tools.w_assign.WESTPAH5File method)
(westpa.core.data_manager.WESTDataManager method)
(westpa.core.h5io.WESTPAH5File method)
require_matplotlib() (westpa.oldtools.aframe.plotting.PlottingMixin method)
(westpa.oldtools.aframe.PlottingMixin method)
require_transitions() (westpa.oldtools.aframe.BFTransitionAnalysisMixin method)
(westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.BFTransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
require_transitions_group() (westpa.oldtools.aframe.TransitionAnalysisMixin method)
(westpa.oldtools.aframe.transitions.TransitionAnalysisMixin method)
require_type_if_present() (westpa.core.yamlcfg.YAMLConfig method)
reset() (westpa.work_managers.core.FutureWatcher method)
(westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.core.PassiveTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
resolution (westpa.core.sim_manager.timedelta attribute)
resolve_filepath() (in module westpa.core.h5io)
restart_loader() (in module westpa.core.propagators.executable)
restart_writer() (in module westpa.core.propagators.executable)
restrict_atoms() (westpa.core.h5io.Trajectory method)
Result (class in westpa.work_managers.zeromq.core)
(class in westpa.work_managers.zeromq.work_manager)
(class in westpa.work_managers.zeromq.worker)
result (westpa.work_managers.core.WMFuture property)
(westpa.work_managers.mpi.WMFuture property)
(westpa.work_managers.processes.WMFuture property)
(westpa.work_managers.serial.WMFuture property)
(westpa.work_managers.threads.WMFuture property)
RESULT (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
result (westpa.work_managers.zeromq.work_manager.WMFuture property)
RESULT (westpa.work_managers.zeromq.worker.Message attribute)
results_loop() (westpa.work_managers.processes.ProcessWorkManager method)
(westpa.work_managers.ProcessWorkManager method)
retrieve_dataset_return() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
return_state_type() (in module westpa.core.propagators.executable)
(in module westpa.core.states)
reverse() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
reweight (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
reweight() (westpa.core.binning.assign.Bin method)
(westpa.core.binning.Bin method)
(westpa.core.binning.bins.Bin method)
reweight_for_c() (in module westpa.cli.tools.w_reweight)
(in module westpa.core.reweight)
ReweightKinetics (class in westpa.cli.tools.ploterr)
ReweightStateprobs (class in westpa.cli.tools.ploterr)
root (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
rotate() (westpa.work_managers.mpi.deque method)
(westpa.work_managers.zeromq.work_manager.deque method)
Run (class in westpa.analysis.core)
run (westpa.analysis.core.Walker property)
run() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
(westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.Task method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.node.ZMQNode method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
(westpa.work_managers.zeromq.work_manager.ZMQNode method)
(westpa.work_managers.zeromq.ZMQNode method)
run_calculation() (westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.tools.kinetics_tool.AverageCommands method)
run_simulation() (in module westpa.cli.core.w_run)
run_we() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
RunningStatsAccumulator (class in westpa.oldtools.stats)
(class in westpa.oldtools.stats.accumulator)
runtask() (westpa.work_managers.threads.ThreadsWorkManager method)
(westpa.work_managers.ThreadsWorkManager method)
RWAll (class in westpa.cli.tools.w_reweight)
RWAverage (class in westpa.cli.tools.w_postanalysis_reweight)
(class in westpa.cli.tools.w_reweight)
RWMatrix (class in westpa.cli.tools.w_postanalysis_matrix)
(class in westpa.cli.tools.w_reweight)
RWRate (class in westpa.cli.tools.w_reweight)
RWReweight (class in westpa.cli.tools.w_reweight)
RWStateProbs (class in westpa.cli.tools.w_reweight)
S
safe_extract() (in module westpa.core.h5io)
(in module westpa.core.propagators.executable)
save() (westpa.core.h5io.Trajectory method)
save_amberrst7() (westpa.core.h5io.Trajectory method)
save_bin_data() (westpa.core.binning.mab_manager.WESimManager method)
(westpa.core.sim_manager.WESimManager method)
save_bin_mapper() (westpa.core.data_manager.WESTDataManager method)
save_binpos() (westpa.core.h5io.Trajectory method)
save_dcd() (westpa.core.h5io.Trajectory method)
save_dtr() (westpa.core.h5io.Trajectory method)
save_gro() (westpa.core.h5io.Trajectory method)
save_gsd() (westpa.core.h5io.Trajectory method)
save_hdf5() (westpa.core.h5io.Trajectory method)
save_iter_binning() (westpa.core.data_manager.WESTDataManager method)
save_lammpstrj() (westpa.core.h5io.Trajectory method)
save_lh5() (westpa.core.h5io.Trajectory method)
save_mdcrd() (westpa.core.h5io.Trajectory method)
save_netcdf() (westpa.core.h5io.Trajectory method)
save_netcdfrst() (westpa.core.h5io.Trajectory method)
save_new_weight_data() (westpa.core.data_manager.WESTDataManager method)
save_pdb() (westpa.core.h5io.Trajectory method)
save_target_states() (westpa.core.data_manager.WESTDataManager method)
save_tng() (westpa.core.h5io.Trajectory method)
save_trr() (westpa.core.h5io.Trajectory method)
save_xtc() (westpa.core.h5io.Trajectory method)
save_xyz() (westpa.core.h5io.Trajectory method)
scan_data_range() (westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_pdist.WPDist method)
scan_data_shape() (westpa.cli.tools.w_eddist.WEDDist method)
(westpa.cli.tools.w_pdist.WPDist method)
scheme (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
seconds (westpa.core.sim_manager.timedelta attribute)
seek() (westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.propagators.executable.BytesIO method)
seekable() (westpa.core.propagators.executable.BytesIO method)
SEG_ENDPOINT_CONTINUES (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
seg_endpoint_dtype (in module westpa.core.data_manager)
SEG_ENDPOINT_MERGED (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
SEG_ENDPOINT_RECYCLED (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
SEG_ENDPOINT_UNSET (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
seg_id (westpa.trajtree.trajtree.trajnode attribute)
seg_id_dtype (in module westpa.cli.core.w_fork)
(in module westpa.cli.tools.w_assign)
(in module westpa.cli.tools.w_ntop)
(in module westpa.cli.tools.w_select)
(in module westpa.cli.tools.w_trace)
(in module westpa.core.data_manager)
(in module westpa.tools.dtypes)
(in module westpa.tools.selected_segs)
SEG_INITPOINT_CONTINUES (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
seg_initpoint_dtype (in module westpa.core.data_manager)
SEG_INITPOINT_NEWTRAJ (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
SEG_INITPOINT_UNSET (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
seg_label_values() (westpa.core.h5io.WESTTrajectory method)
seg_labels (westpa.core.h5io.WESTTrajectory property)
SEG_STATUS_COMPLETE (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
seg_status_dtype (in module westpa.core.data_manager)
SEG_STATUS_FAILED (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
SEG_STATUS_PREPARED (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
SEG_STATUS_UNSET (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
seglog_loader() (in module westpa.core.propagators.executable)
Segment (class in westpa.cli.core.w_fork)
(class in westpa.cli.core.w_states)
(class in westpa.cli.core.w_succ)
(class in westpa.cli.tools.w_dumpsegs)
(class in westpa.cli.tools.w_trace)
(class in westpa.core.binning.mab_manager)
(class in westpa.core.data_manager)
(class in westpa.core.propagators.executable)
(class in westpa.core.segment)
(class in westpa.core.sim_manager)
(class in westpa.core.states)
(class in westpa.core.we_driver)
(class in westpa.oldtools.aframe.data_reader)
segment_collector (westpa.analysis.trajectories.Trajectory property)
segment_summaries (westpa.analysis.core.Iteration property)
segment_summary (westpa.analysis.core.Walker property)
SegmentCollector (class in westpa.analysis.trajectories)
SegmentSelection (class in westpa.tools.selected_segs)
SegSelector (class in westpa.tools)
(class in westpa.tools.selected_segs)
selected_bin_pair_iter (westpa.oldtools.aframe.kinetics.KineticsAnalysisMixin property)
(westpa.oldtools.aframe.KineticsAnalysisMixin property)
send_ack() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
send_inproc_message() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
send_message() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
send_nak() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
send_reply() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
sequence_macro_flux_to_rate() (in module westpa.cli.tools.w_direct)
(in module westpa.core.kinetics)
Serial (class in westpa.work_managers.mpi)
SerialWorkManager (class in westpa.work_managers)
(class in westpa.work_managers.serial)
set() (westpa.cli.tools.plothist.NonUniformImage method)
set_arg_default() (westpa.tools.binning.WESTToolComponent method)
(westpa.tools.core.WESTToolComponent method)
(westpa.tools.data_reader.WESTToolComponent method)
(westpa.tools.iter_range.WESTToolComponent method)
(westpa.tools.progress.WESTToolComponent method)
(westpa.tools.selected_segs.WESTToolComponent method)
(westpa.tools.WESTToolComponent method)
set_array() (westpa.cli.tools.plothist.NonUniformImage method)
set_cmap() (westpa.cli.tools.plothist.NonUniformImage method)
set_data() (westpa.cli.tools.plothist.NonUniformImage method)
set_filternorm() (westpa.cli.tools.plothist.NonUniformImage method)
set_filterrad() (westpa.cli.tools.plothist.NonUniformImage method)
set_interpolation() (westpa.cli.tools.plothist.NonUniformImage method)
set_norm() (westpa.cli.tools.plothist.NonUniformImage method)
set_other_h5file_info() (westpa.cli.tools.w_assign.BinMappingComponent method)
(westpa.cli.tools.w_bins.BinMappingComponent method)
(westpa.tools.BinMappingComponent method)
(westpa.tools.binning.BinMappingComponent method)
set_state() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
set_we_h5file_info() (westpa.cli.tools.w_assign.BinMappingComponent method)
(westpa.cli.tools.w_bins.BinMappingComponent method)
(westpa.tools.BinMappingComponent method)
(westpa.tools.binning.BinMappingComponent method)
setup_dataset_return() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
SHUTDOWN (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
shutdown() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.Manager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.ProcessWorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.ProcessWorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.ThreadsWorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.ThreadsWorkManager method)
(westpa.work_managers.zeromq.core.IsNode method)
(westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.IsNode method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.IsNode method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
shutdown_clear_tasks() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
shutdown_executor() (westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorker method)
shutdown_handler() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
shutdown_process() (in module westpa.work_managers.zeromq.core)
sigint_handler() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
signal() (westpa.work_managers.core.FutureWatcher method)
signal_shutdown() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
SingleDSSpec (class in westpa.core.h5io)
SingleIterDSSpec (class in westpa.core.h5io)
(class in westpa.tools.data_reader)
SingleSegmentDSSpec (class in westpa.core.h5io)
(class in westpa.tools.data_reader)
sink (westpa.analysis.core.Iteration property)
slice() (westpa.core.h5io.Trajectory method)
(westpa.core.h5io.WESTTrajectory method)
slice_per_iter_data() (westpa.cli.tools.w_crawl.IterRangeSelection method)
(westpa.cli.tools.w_fluxanl.IterRangeSelection method)
(westpa.cli.tools.w_ntop.IterRangeSelection method)
(westpa.cli.tools.w_pdist.IterRangeSelection method)
(westpa.cli.tools.w_select.IterRangeSelection method)
(westpa.oldtools.aframe.iter_range.IterRangeMixin method)
(westpa.oldtools.aframe.IterRangeMixin method)
(westpa.tools.iter_range.IterRangeSelection method)
(westpa.tools.IterRangeSelection method)
(westpa.tools.kinetics_tool.IterRangeSelection method)
smallest_allowed_weight (westpa.core.binning.mab_driver.WEDriver attribute)
(westpa.core.we_driver.WEDriver attribute)
smooth() (westpa.core.h5io.Trajectory method)
solve_steady_state() (in module westpa.westext.wess.ProbAdjust)
stack() (westpa.core.h5io.Trajectory method)
stamp_creator_data() (in module westpa.core.h5io)
stamp_hash() (westpa.cli.tools.w_ipa.WIPI method)
stamp_iter_range() (in module westpa.core.h5io)
stamp_iter_step() (in module westpa.core.h5io)
stamp_mcbs_info() (westpa.cli.tools.w_direct.AverageCommands method)
(westpa.cli.tools.w_reweight.AverageCommands method)
(westpa.tools.kinetics_tool.AverageCommands method)
start() (westpa.core.progress.ProgressIndicator method)
(westpa.tools.progress.ProgressIndicator method)
(westpa.work_managers.zeromq.core.PassiveTimer method)
start_accumulation() (westpa.oldtools.aframe.TransitionEventAccumulator method)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator method)
start_index (westpa.core.binning.assign.RecursiveBinMapper property)
(westpa.core.binning.RecursiveBinMapper property)
start_iter (westpa.tools.selected_segs.SegmentSelection property)
started (westpa.work_managers.zeromq.core.PassiveTimer attribute)
startup() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.Manager method)
(westpa.work_managers.mpi.Worker method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.ProcessWorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.ProcessWorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.ThreadsWorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.ThreadsWorkManager method)
(westpa.work_managers.zeromq.core.IsNode method)
(westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.IsNode method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQNode method)
(westpa.work_managers.zeromq.work_manager.IsNode method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQNode method)
(westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQExecutor method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQCore method)
(westpa.work_managers.zeromq.ZMQNode method)
(westpa.work_managers.zeromq.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
state_labels (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
states_from_dict() (westpa.cli.tools.w_assign.WAssign method)
states_from_file() (westpa.cli.core.w_init.BasisState class method)
(westpa.cli.core.w_init.TargetState class method)
(westpa.cli.core.w_states.BasisState class method)
(westpa.cli.core.w_states.TargetState class method)
(westpa.core.data_manager.BasisState class method)
(westpa.core.data_manager.TargetState class method)
(westpa.core.propagators.executable.BasisState class method)
(westpa.core.states.BasisState class method)
(westpa.core.states.TargetState class method)
states_to_file() (westpa.cli.core.w_init.BasisState class method)
(westpa.cli.core.w_init.TargetState class method)
(westpa.cli.core.w_states.BasisState class method)
(westpa.cli.core.w_states.TargetState class method)
(westpa.core.data_manager.BasisState class method)
(westpa.core.data_manager.TargetState class method)
(westpa.core.propagators.executable.BasisState class method)
(westpa.core.states.BasisState class method)
(westpa.core.states.TargetState class method)
stats_process() (in module westpa.core.reweight)
(in module westpa.core.reweight.matrix)
status_names (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
status_text (westpa.cli.core.w_fork.Segment property)
(westpa.cli.core.w_states.Segment property)
(westpa.cli.core.w_succ.Segment property)
(westpa.cli.tools.w_dumpsegs.Segment property)
(westpa.cli.tools.w_trace.Segment property)
(westpa.core.binning.mab_manager.Segment property)
(westpa.core.data_manager.Segment property)
(westpa.core.propagators.executable.Segment property)
(westpa.core.segment.Segment property)
(westpa.core.sim_manager.Segment property)
(westpa.core.states.Segment property)
(westpa.core.we_driver.Segment property)
(westpa.oldtools.aframe.data_reader.Segment property)
statuses (westpa.cli.core.w_fork.Segment attribute)
(westpa.cli.core.w_states.Segment attribute)
(westpa.cli.core.w_succ.Segment attribute)
(westpa.cli.tools.w_dumpsegs.Segment attribute)
(westpa.cli.tools.w_trace.Segment attribute)
(westpa.core.binning.mab_manager.Segment attribute)
(westpa.core.data_manager.Segment attribute)
(westpa.core.propagators.executable.Segment attribute)
(westpa.core.segment.Segment attribute)
(westpa.core.sim_manager.Segment attribute)
(westpa.core.states.Segment attribute)
(westpa.core.we_driver.Segment attribute)
(westpa.oldtools.aframe.data_reader.Segment attribute)
std() (westpa.oldtools.stats.accumulator.RunningStatsAccumulator method)
(westpa.oldtools.stats.edfs.EDF method)
(westpa.oldtools.stats.RunningStatsAccumulator method)
stop() (westpa.core.progress.ProgressIndicator method)
(westpa.tools.progress.ProgressIndicator method)
stop_iter (westpa.tools.selected_segs.SegmentSelection property)
StreamingStats1D (class in westpa.core.kinetics.rate_averaging)
StreamingStats2D (class in westpa.core.kinetics.rate_averaging)
StreamingStatsTuple (class in westpa.core.kinetics.rate_averaging)
subcommand (westpa.cli.tools.ploterr.DirectKinetics attribute)
(westpa.cli.tools.ploterr.DirectStateprobs attribute)
(westpa.cli.tools.ploterr.GenericIntervalSubcommand attribute)
(westpa.cli.tools.ploterr.ReweightKinetics attribute)
(westpa.cli.tools.ploterr.ReweightStateprobs attribute)
(westpa.cli.tools.ploterr.WESTSubcommand attribute)
(westpa.cli.tools.plothist.AveragePlotHist attribute)
(westpa.cli.tools.plothist.EvolutionPlotHist attribute)
(westpa.cli.tools.plothist.InstantPlotHist attribute)
(westpa.cli.tools.plothist.WESTSubcommand attribute)
(westpa.cli.tools.w_direct.DAll attribute)
(westpa.cli.tools.w_direct.DAverage attribute)
(westpa.cli.tools.w_direct.DKinAvg attribute)
(westpa.cli.tools.w_direct.DKinetics attribute)
(westpa.cli.tools.w_direct.DStateProbs attribute)
(westpa.cli.tools.w_kinavg.DKinAvg attribute)
(westpa.cli.tools.w_kinavg.WKinAvg attribute)
(westpa.cli.tools.w_kinetics.DKinetics attribute)
(westpa.cli.tools.w_kinetics.WKinetics attribute)
(westpa.cli.tools.w_postanalysis_matrix.PAMatrix attribute)
(westpa.cli.tools.w_postanalysis_matrix.RWMatrix attribute)
(westpa.cli.tools.w_postanalysis_reweight.PAAverage attribute)
(westpa.cli.tools.w_postanalysis_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWAll attribute)
(westpa.cli.tools.w_reweight.RWAverage attribute)
(westpa.cli.tools.w_reweight.RWMatrix attribute)
(westpa.cli.tools.w_reweight.RWRate attribute)
(westpa.cli.tools.w_reweight.RWStateProbs attribute)
(westpa.cli.tools.w_stateprobs.DStateProbs attribute)
(westpa.cli.tools.w_stateprobs.WStateProbs attribute)
(westpa.tools.core.WESTSubcommand attribute)
(westpa.tools.kinetics_tool.WESTSubcommand attribute)
(westpa.tools.WESTSubcommand attribute)
subcommands (westpa.cli.tools.ploterr.PloterrsTool attribute)
(westpa.cli.tools.ploterr.WESTMasterCommand attribute)
(westpa.cli.tools.plothist.PlotHistTool attribute)
(westpa.cli.tools.plothist.WESTMasterCommand attribute)
(westpa.cli.tools.w_direct.WDirect attribute)
(westpa.cli.tools.w_direct.WESTMasterCommand attribute)
(westpa.cli.tools.w_kinavg.WDirect attribute)
(westpa.cli.tools.w_kinavg.WESTMasterCommand attribute)
(westpa.cli.tools.w_kinetics.WDirect attribute)
(westpa.cli.tools.w_kinetics.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_matrix.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_matrix.WReweight attribute)
(westpa.cli.tools.w_postanalysis_reweight.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_reweight.WReweight attribute)
(westpa.cli.tools.w_reweight.WESTMasterCommand attribute)
(westpa.cli.tools.w_reweight.WReweight attribute)
(westpa.cli.tools.w_stateprobs.WDirect attribute)
(westpa.cli.tools.w_stateprobs.WESTMasterCommand attribute)
(westpa.tools.core.WESTMasterCommand attribute)
(westpa.tools.WESTMasterCommand attribute)
submit() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.Manager method)
(westpa.work_managers.mpi.MPIWorkManager method)
(westpa.work_managers.mpi.Serial method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.ProcessWorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.ProcessWorkManager method)
(westpa.work_managers.serial.SerialWorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.SerialWorkManager method)
(westpa.work_managers.threads.ThreadsWorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.ThreadsWorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
submit_as_completed() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
submit_many() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
(westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
subparsers_title (westpa.cli.tools.ploterr.PloterrsTool attribute)
(westpa.cli.tools.ploterr.WESTMasterCommand attribute)
(westpa.cli.tools.plothist.PlotHistTool attribute)
(westpa.cli.tools.plothist.WESTMasterCommand attribute)
(westpa.cli.tools.w_direct.WDirect attribute)
(westpa.cli.tools.w_direct.WESTMasterCommand attribute)
(westpa.cli.tools.w_kinavg.WDirect attribute)
(westpa.cli.tools.w_kinavg.WESTMasterCommand attribute)
(westpa.cli.tools.w_kinetics.WDirect attribute)
(westpa.cli.tools.w_kinetics.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_matrix.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_matrix.WReweight attribute)
(westpa.cli.tools.w_postanalysis_reweight.WESTMasterCommand attribute)
(westpa.cli.tools.w_postanalysis_reweight.WReweight attribute)
(westpa.cli.tools.w_reweight.WESTMasterCommand attribute)
(westpa.cli.tools.w_reweight.WReweight attribute)
(westpa.cli.tools.w_stateprobs.WDirect attribute)
(westpa.cli.tools.w_stateprobs.WESTMasterCommand attribute)
(westpa.tools.core.WESTMasterCommand attribute)
(westpa.tools.WESTMasterCommand attribute)
sum_except_along() (in module westpa.cli.tools.plothist)
summary (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Run property)
superpose() (westpa.core.h5io.Trajectory method)
system (westpa.core.data_manager.WESTDataManager property)
T
table_scan_chunksize (westpa.core.data_manager.WESTDataManager attribute)
target_state() (westpa.analysis.core.Iteration method)
target_state_pcoords (westpa.analysis.core.Iteration property)
target_state_summaries (westpa.analysis.core.Iteration property)
target_states (westpa.analysis.core.Iteration property)
TargetState (class in westpa.cli.core.w_init)
(class in westpa.cli.core.w_states)
(class in westpa.core.data_manager)
(class in westpa.core.states)
Task (class in westpa.work_managers.mpi)
(class in westpa.work_managers.threads)
(class in westpa.work_managers.zeromq.core)
(class in westpa.work_managers.zeromq.work_manager)
(class in westpa.work_managers.zeromq.worker)
TASK (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
task_generator() (westpa.core.kinetics.rate_averaging.RateAverager method)
(westpa.core.kinetics.RateAverager method)
(westpa.westext.weed.weed_driver.RateAverager method)
(westpa.westext.wess.wess_driver.RateAverager method)
task_loop() (westpa.work_managers.processes.ProcessWorkManager method)
(westpa.work_managers.ProcessWorkManager method)
TASK_REQUEST (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
TASKS_AVAILABLE (westpa.work_managers.zeromq.core.Message attribute)
(westpa.work_managers.zeromq.node.Message attribute)
(westpa.work_managers.zeromq.work_manager.Message attribute)
(westpa.work_managers.zeromq.worker.Message attribute)
tau (westpa.cli.tools.w_red.RateCalculator property)
tdat_buffersize (westpa.oldtools.aframe.TransitionEventAccumulator attribute)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator attribute)
tell() (westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.propagators.executable.BytesIO method)
temperature (westpa.core.h5io.Frames attribute)
template_args_for_segment() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
text_to_h5dataset() (westpa.oldtools.aframe.data_reader.ExtDataReaderMixin method)
(westpa.oldtools.aframe.ExtDataReaderMixin method)
ThreadProxy (class in westpa.work_managers.zeromq.node)
ThreadsWorkManager (class in westpa.work_managers)
(class in westpa.work_managers.threads)
time (westpa.core.h5io.Frames attribute)
(westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
time_average() (in module westpa.analysis.statistics)
timedelta (class in westpa.core.sim_manager)
timestep (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
title (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
top (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
topology (westpa.core.h5io.HDF5TrajectoryFile attribute)
(westpa.core.h5io.HDF5TrajectoryFile property)
(westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
tostr() (in module westpa.core.h5io)
total_number_of_walkers() (westpa.cli.tools.w_multi_west.WMultiWest method)
total_seconds() (westpa.core.sim_manager.timedelta method)
total_segs_in_range() (westpa.cli.core.w_succ.WESTDataReaderMixin method)
(westpa.oldtools.aframe.data_reader.WESTDataReaderMixin method)
(westpa.oldtools.aframe.WESTDataReaderMixin method)
Trace (class in westpa.analysis.core)
(class in westpa.cli.tools.w_trace)
trace() (westpa.analysis.core.Walker method)
(westpa.cli.tools.w_ipa.WIPI method)
trace_timepoint_dataset() (westpa.cli.tools.w_trace.Trace method)
trace_to_root() (westpa.oldtools.aframe.TrajWalker method)
(westpa.oldtools.aframe.trajwalker.TrajWalker method)
(westpa.oldtools.aframe.transitions.TrajWalker method)
trace_trajectories() (westpa.oldtools.aframe.TrajWalker method)
(westpa.oldtools.aframe.trajwalker.TrajWalker method)
(westpa.oldtools.aframe.transitions.TrajWalker method)
(westpa.trajtree.trajtree.TrajTreeSet method)
(westpa.trajtree.TrajTreeSet method)
traceback (westpa.work_managers.core.WMFuture property)
(westpa.work_managers.mpi.WMFuture property)
(westpa.work_managers.processes.WMFuture property)
(westpa.work_managers.serial.WMFuture property)
(westpa.work_managers.threads.WMFuture property)
(westpa.work_managers.zeromq.work_manager.WMFuture property)
traj_index_dtype (westpa.oldtools.aframe.BFDataManager attribute)
(westpa.oldtools.aframe.data_reader.BFDataManager attribute)
Trajectory (class in westpa.analysis.trajectories)
(class in westpa.core.h5io)
trajectory_loader() (in module westpa.core.propagators.executable)
trajnode (class in westpa.trajtree.trajtree)
TrajTreeSet (class in westpa.trajtree)
(class in westpa.trajtree.trajtree)
TrajWalker (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.trajwalker)
(class in westpa.oldtools.aframe.transitions)
TransitionAnalysisMixin (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.transitions)
TransitionEventAccumulator (class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.transitions)
transpose() (westpa.westext.weed.UncertMath.UncertContainer method)
truncate() (westpa.core.propagators.executable.BytesIO method)
tuple2stats() (in module westpa.core.kinetics.rate_averaging)
U
UncertContainer (class in westpa.westext.weed.UncertMath)
union() (westpa.analysis.core.BinUnion method)
unitcell_angles (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
unitcell_lengths (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
unitcell_vectors (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
unitcell_volumes (westpa.core.h5io.Trajectory property)
update() (westpa.core.kinetics.rate_averaging.StreamingStats1D method)
(westpa.core.kinetics.rate_averaging.StreamingStats2D method)
update_args_env_basis_state() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
update_args_env_initial_state() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
update_args_env_iter() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
update_args_env_segment() (westpa.core.data_manager.ExecutablePropagator method)
(westpa.core.propagators.executable.ExecutablePropagator method)
update_basis_initial_states() (westpa.core.propagators.executable.WESTPropagator method)
(westpa.core.propagators.WESTPropagator method)
update_bin_mapper() (westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
update_centers() (westpa.westext.adaptvoronoi.AdaptiveVoronoiDriver method)
(westpa.westext.adaptvoronoi.adaptVor_driver.AdaptiveVoronoiDriver method)
update_from_file() (westpa.core.yamlcfg.YAMLConfig method)
update_initial_states() (westpa.core.data_manager.WESTDataManager method)
update_iter_group_links() (westpa.core.data_manager.WESTDataManager method)
update_iter_h5file() (westpa.core.data_manager.WESTDataManager method)
update_iter_summary() (westpa.core.data_manager.WESTDataManager method)
update_mask() (westpa.westext.weed.UncertMath.UncertContainer method)
update_master_info() (westpa.work_managers.zeromq.work_manager.ZMQWorker method)
(westpa.work_managers.zeromq.worker.ZMQWorker method)
(westpa.work_managers.zeromq.ZMQWorker method)
update_segments() (westpa.core.data_manager.WESTDataManager method)
update_traj_index() (westpa.oldtools.aframe.BFDataManager method)
(westpa.oldtools.aframe.data_reader.BFDataManager method)
update_worker_information() (westpa.work_managers.zeromq.work_manager.ZMQWorkManager method)
(westpa.work_managers.zeromq.ZMQWorkManager method)
usage (westpa.cli.tools.w_bins.WESTTool attribute)
(westpa.cli.tools.w_dumpsegs.WESTTool attribute)
(westpa.cli.tools.w_fluxanl.WESTTool attribute)
(westpa.cli.tools.w_multi_west.WESTTool attribute)
(westpa.cli.tools.w_ntop.WESTTool attribute)
(westpa.cli.tools.w_trace.WESTTool attribute)
(westpa.tools.core.WESTTool attribute)
(westpa.tools.WESTTool attribute)
utime_dtype (in module westpa.cli.tools.w_trace)
(in module westpa.core.data_manager)
V
valid_work_managers (westpa.work_managers.environment.WMEnvironment attribute)
validate_message() (westpa.work_managers.zeromq.core.ZMQCore method)
(westpa.work_managers.zeromq.node.ZMQCore method)
(westpa.work_managers.zeromq.work_manager.ZMQCore method)
(westpa.work_managers.zeromq.worker.ZMQCore method)
(westpa.work_managers.zeromq.ZMQCore method)
var (westpa.core.kinetics.rate_averaging.StreamingStats1D attribute)
(westpa.core.kinetics.rate_averaging.StreamingStats2D attribute)
var() (westpa.oldtools.stats.edfs.EDF method)
VectorizingFuncBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
velocities (westpa.core.h5io.Frames attribute)
VoronoiBinMapper (class in westpa.core.binning)
(class in westpa.core.binning.assign)
(class in westpa.westext.adaptvoronoi.adaptVor_driver)
W
w_kinavg() (westpa.cli.tools.w_direct.DKinAvg method)
(westpa.cli.tools.w_kinavg.DKinAvg method)
w_kinetics() (westpa.cli.tools.w_direct.WKinetics method)
(westpa.core.kinetics.events.WKinetics method)
(westpa.core.kinetics.WKinetics method)
w_postanalysis_matrix() (westpa.cli.tools.w_reweight.FluxMatrix method)
(westpa.core.reweight.FluxMatrix method)
(westpa.core.reweight.matrix.FluxMatrix method)
w_postanalysis_reweight() (westpa.cli.tools.w_reweight.RWRate method)
w_postanalysis_stateprobs() (westpa.cli.tools.w_reweight.RWStateProbs method)
w_stateprobs() (westpa.cli.tools.w_direct.DStateProbs method)
(westpa.cli.tools.w_stateprobs.DStateProbs method)
wait() (westpa.work_managers.core.FutureWatcher method)
(westpa.work_managers.core.WMFuture method)
(westpa.work_managers.mpi.WMFuture method)
(westpa.work_managers.processes.WMFuture method)
(westpa.work_managers.serial.WMFuture method)
(westpa.work_managers.threads.WMFuture method)
(westpa.work_managers.zeromq.work_manager.WMFuture method)
wait_all() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
wait_any() (westpa.work_managers.core.WorkManager method)
(westpa.work_managers.mpi.WorkManager method)
(westpa.work_managers.processes.WorkManager method)
(westpa.work_managers.serial.WorkManager method)
(westpa.work_managers.threads.WorkManager method)
(westpa.work_managers.zeromq.work_manager.WorkManager method)
Walker (class in westpa.analysis.core)
walker() (westpa.analysis.core.Iteration method)
walkers (westpa.analysis.core.Iteration property)
(westpa.analysis.core.Run property)
warn() (in module westpa.cli.tools.w_dumpsegs)
(in module westpa.cli.tools.w_fluxanl)
(in module westpa.cli.tools.w_kinavg)
(in module westpa.cli.tools.w_kinetics)
(in module westpa.cli.tools.w_postanalysis_matrix)
(in module westpa.cli.tools.w_postanalysis_reweight)
(in module westpa.cli.tools.w_stateprobs)
warn_dubious_config_entry() (in module westpa.core.yamlcfg)
WAssign (class in westpa.cli.tools.w_assign)
WBinTool (class in westpa.cli.tools.w_bins)
WCrawl (class in westpa.cli.tools.w_crawl)
WDirect (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_kinavg)
(class in westpa.cli.tools.w_kinetics)
(class in westpa.cli.tools.w_stateprobs)
WDumpSegs (class in westpa.cli.tools.w_dumpsegs)
WEDDist (class in westpa.cli.tools.w_eddist)
WEDriver (class in westpa.core.binning.mab_driver)
(class in westpa.core.we_driver)
WEEDDriver (class in westpa.westext.weed)
(class in westpa.westext.weed.weed_driver)
weight (westpa.analysis.core.Walker property)
(westpa.core.binning.assign.Bin property)
(westpa.core.binning.Bin property)
(westpa.core.binning.bins.Bin property)
weight_dsspec (westpa.cli.tools.w_assign.WESTDataReader property)
(westpa.cli.tools.w_bins.WESTDataReader property)
(westpa.cli.tools.w_crawl.WESTDataReader property)
(westpa.cli.tools.w_dumpsegs.WESTDataReader property)
(westpa.cli.tools.w_fluxanl.WESTDataReader property)
(westpa.cli.tools.w_ipa.WESTDataReader property)
(westpa.cli.tools.w_ntop.WESTDataReader property)
(westpa.cli.tools.w_pdist.WESTDataReader property)
(westpa.cli.tools.w_select.WESTDataReader property)
(westpa.cli.tools.w_trace.WESTDataReader property)
(westpa.tools.data_reader.WESTDataReader property)
(westpa.tools.kinetics_tool.WESTDataReader property)
(westpa.tools.WESTDataReader property)
weight_dtype (in module westpa.cli.tools.w_assign)
(in module westpa.cli.tools.w_direct)
(in module westpa.cli.tools.w_fluxanl)
(in module westpa.cli.tools.w_ntop)
(in module westpa.cli.tools.w_select)
(in module westpa.cli.tools.w_trace)
(in module westpa.core.data_manager)
(in module westpa.core.kinetics.events)
(in module westpa.core.kinetics.matrates)
(in module westpa.core.reweight.matrix)
(in module westpa.core.sim_manager)
(in module westpa.tools.binning)
(in module westpa.tools.dtypes)
(westpa.oldtools.aframe.TransitionEventAccumulator attribute)
(westpa.oldtools.aframe.transitions.TransitionEventAccumulator attribute)
weight_merge_cutoff (westpa.core.binning.mab_driver.WEDriver attribute)
(westpa.core.we_driver.WEDriver attribute)
weight_split_threshold (westpa.core.binning.mab_driver.WEDriver attribute)
(westpa.core.we_driver.WEDriver attribute)
weighted_average() (westpa.westext.weed.UncertMath.UncertContainer method)
weights (westpa.analysis.core.Iteration property)
WESimManager (class in westpa.core.binning.mab_manager)
(class in westpa.core.sim_manager)
WESSDriver (class in westpa.westext.wess)
(class in westpa.westext.wess.wess_driver)
west (westpa.cli.tools.w_ipa.WIPI property)
(westpa.cli.tools.w_ipa.WIPIScheme property)
(westpa.tools.wipi.WIPIScheme property)
(westpa.tools.WIPIScheme property)
WESTAnalysisTool (class in westpa.cli.core.w_succ)
(class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.atool)
WESTDataManager (class in westpa.core.data_manager)
WESTDataReader (class in westpa.cli.tools.w_assign)
(class in westpa.cli.tools.w_bins)
(class in westpa.cli.tools.w_crawl)
(class in westpa.cli.tools.w_dumpsegs)
(class in westpa.cli.tools.w_fluxanl)
(class in westpa.cli.tools.w_ipa)
(class in westpa.cli.tools.w_ntop)
(class in westpa.cli.tools.w_pdist)
(class in westpa.cli.tools.w_select)
(class in westpa.cli.tools.w_trace)
(class in westpa.tools)
(class in westpa.tools.data_reader)
(class in westpa.tools.kinetics_tool)
WESTDataReaderMixin (class in westpa.cli.core.w_succ)
(class in westpa.oldtools.aframe)
(class in westpa.oldtools.aframe.data_reader)
WESTDSSynthesizer (class in westpa.cli.tools.w_assign)
(class in westpa.cli.tools.w_pdist)
(class in westpa.tools)
(class in westpa.tools.data_reader)
WESTIterationFile (class in westpa.core.h5io)
WESTKineticsBase (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_reweight)
(class in westpa.tools.kinetics_tool)
WESTMasterCommand (class in westpa.cli.tools.ploterr)
(class in westpa.cli.tools.plothist)
(class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_kinavg)
(class in westpa.cli.tools.w_kinetics)
(class in westpa.cli.tools.w_postanalysis_matrix)
(class in westpa.cli.tools.w_postanalysis_reweight)
(class in westpa.cli.tools.w_reweight)
(class in westpa.cli.tools.w_stateprobs)
(class in westpa.tools)
(class in westpa.tools.core)
WESTMultiTool (class in westpa.cli.tools.w_multi_west)
(class in westpa.tools)
(class in westpa.tools.core)
WESTMultiTool.NoSimulationsException
,
[1]
,
[2]
westpa.analysis.core
module
westpa.analysis.statistics
module
westpa.analysis.trajectories
module
westpa.cli.core.w_fork
module
westpa.cli.core.w_init
module
westpa.cli.core.w_run
module
westpa.cli.core.w_states
module
westpa.cli.core.w_succ
module
westpa.cli.core.w_truncate
module
westpa.cli.tools.ploterr
module
westpa.cli.tools.plothist
module
westpa.cli.tools.w_assign
module
westpa.cli.tools.w_bins
module
westpa.cli.tools.w_crawl
module
westpa.cli.tools.w_direct
module
westpa.cli.tools.w_dumpsegs
module
westpa.cli.tools.w_eddist
module
westpa.cli.tools.w_fluxanl
module
westpa.cli.tools.w_ipa
module
westpa.cli.tools.w_kinavg
module
westpa.cli.tools.w_kinetics
module
westpa.cli.tools.w_multi_west
module
westpa.cli.tools.w_ntop
module
westpa.cli.tools.w_pdist
module
westpa.cli.tools.w_postanalysis_matrix
module
westpa.cli.tools.w_postanalysis_reweight
module
westpa.cli.tools.w_red
module
westpa.cli.tools.w_reweight
module
westpa.cli.tools.w_select
module
westpa.cli.tools.w_stateprobs
module
westpa.cli.tools.w_trace
module
westpa.core
module
westpa.core.binning
module
westpa.core.binning.assign
module
,
[1]
westpa.core.binning.bins
module
,
[1]
westpa.core.binning.mab
module
westpa.core.binning.mab_driver
module
westpa.core.binning.mab_manager
module
westpa.core.data_manager
module
westpa.core.extloader
module
westpa.core.h5io
module
westpa.core.kinetics
module
westpa.core.kinetics.events
module
westpa.core.kinetics.matrates
module
westpa.core.kinetics.rate_averaging
module
westpa.core.progress
module
westpa.core.propagators
module
westpa.core.propagators.executable
module
westpa.core.reweight
module
westpa.core.reweight.matrix
module
westpa.core.segment
module
westpa.core.sim_manager
module
westpa.core.states
module
westpa.core.systems
module
westpa.core.textio
module
westpa.core.we_driver
module
westpa.core.wm_ops
module
westpa.core.yamlcfg
module
,
[1]
westpa.fasthist
module
westpa.mclib
module
westpa.oldtools
module
westpa.oldtools.aframe
module
westpa.oldtools.aframe.atool
module
westpa.oldtools.aframe.base_mixin
module
westpa.oldtools.aframe.binning
module
westpa.oldtools.aframe.data_reader
module
westpa.oldtools.aframe.iter_range
module
westpa.oldtools.aframe.kinetics
module
westpa.oldtools.aframe.mcbs
module
westpa.oldtools.aframe.output
module
westpa.oldtools.aframe.plotting
module
westpa.oldtools.aframe.trajwalker
module
westpa.oldtools.aframe.transitions
module
westpa.oldtools.cmds
module
westpa.oldtools.files
module
westpa.oldtools.miscfn
module
westpa.oldtools.stats
module
westpa.oldtools.stats.accumulator
module
westpa.oldtools.stats.edfs
module
westpa.oldtools.stats.mcbs
module
westpa.tools
module
westpa.tools.binning
module
westpa.tools.core
module
westpa.tools.data_reader
module
westpa.tools.dtypes
module
westpa.tools.iter_range
module
westpa.tools.kinetics_tool
module
westpa.tools.plot
module
westpa.tools.progress
module
westpa.tools.selected_segs
module
westpa.tools.wipi
module
westpa.trajtree
module
westpa.trajtree.trajtree
module
westpa.westext
module
westpa.westext.adaptvoronoi
module
westpa.westext.adaptvoronoi.adaptVor_driver
module
westpa.westext.weed
module
westpa.westext.weed.BinCluster
module
westpa.westext.weed.ProbAdjustEquil
module
westpa.westext.weed.UncertMath
module
westpa.westext.weed.weed_driver
module
westpa.westext.wess
module
westpa.westext.wess.ProbAdjust
module
westpa.westext.wess.wess_driver
module
westpa.work_managers
module
westpa.work_managers.core
module
westpa.work_managers.environment
module
westpa.work_managers.mpi
module
westpa.work_managers.processes
module
westpa.work_managers.serial
module
westpa.work_managers.threads
module
westpa.work_managers.zeromq
module
westpa.work_managers.zeromq.core
module
westpa.work_managers.zeromq.node
module
westpa.work_managers.zeromq.work_manager
module
westpa.work_managers.zeromq.worker
module
WESTPACrawler (class in westpa.cli.tools.w_crawl)
WESTPAH5File (class in westpa.cli.tools.w_assign)
(class in westpa.core.h5io)
WESTParallelTool (class in westpa.cli.tools.w_assign)
(class in westpa.cli.tools.w_crawl)
(class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_eddist)
(class in westpa.cli.tools.w_ipa)
(class in westpa.cli.tools.w_kinavg)
(class in westpa.cli.tools.w_kinetics)
(class in westpa.cli.tools.w_pdist)
(class in westpa.cli.tools.w_postanalysis_matrix)
(class in westpa.cli.tools.w_postanalysis_reweight)
(class in westpa.cli.tools.w_red)
(class in westpa.cli.tools.w_reweight)
(class in westpa.cli.tools.w_select)
(class in westpa.cli.tools.w_stateprobs)
(class in westpa.tools)
(class in westpa.tools.core)
WESTPropagator (class in westpa.core.propagators)
(class in westpa.core.propagators.executable)
WESTRC (class in westpa.core._rc)
WESTSubcommand (class in westpa.cli.tools.ploterr)
(class in westpa.cli.tools.plothist)
(class in westpa.tools)
(class in westpa.tools.core)
(class in westpa.tools.kinetics_tool)
WESTSystem (class in westpa.core.systems)
WESTTool (class in westpa.cli.tools.w_bins)
(class in westpa.cli.tools.w_dumpsegs)
(class in westpa.cli.tools.w_fluxanl)
(class in westpa.cli.tools.w_multi_west)
(class in westpa.cli.tools.w_ntop)
(class in westpa.cli.tools.w_trace)
(class in westpa.tools)
(class in westpa.tools.core)
WESTToolComponent (class in westpa.tools)
(class in westpa.tools.binning)
(class in westpa.tools.core)
(class in westpa.tools.data_reader)
(class in westpa.tools.iter_range)
(class in westpa.tools.progress)
(class in westpa.tools.selected_segs)
WESTTrajectory (class in westpa.core.h5io)
WESTWDSSynthesizer (class in westpa.cli.tools.w_pdist)
(class in westpa.tools)
(class in westpa.tools.data_reader)
WFluxanlTool (class in westpa.cli.tools.w_fluxanl)
which_expired() (westpa.work_managers.zeromq.core.PassiveMultiTimer method)
(westpa.work_managers.zeromq.node.PassiveMultiTimer method)
(westpa.work_managers.zeromq.work_manager.PassiveMultiTimer method)
(westpa.work_managers.zeromq.worker.PassiveMultiTimer method)
WIPI (class in westpa.cli.tools.w_ipa)
WIPI.Future (class in westpa.cli.tools.w_ipa)
WIPIDataset (class in westpa.cli.tools.w_ipa)
(class in westpa.tools)
(class in westpa.tools.wipi)
WIPIScheme (class in westpa.cli.tools.w_ipa)
(class in westpa.tools)
(class in westpa.tools.wipi)
WKinAvg (class in westpa.cli.tools.w_kinavg)
WKinetics (class in westpa.cli.tools.w_direct)
(class in westpa.cli.tools.w_kinetics)
(class in westpa.core.kinetics)
(class in westpa.core.kinetics.events)
WMEnvironment (class in westpa.work_managers.environment)
WMFuture (class in westpa.work_managers.core)
(class in westpa.work_managers.mpi)
(class in westpa.work_managers.processes)
(class in westpa.work_managers.serial)
(class in westpa.work_managers.threads)
(class in westpa.work_managers.zeromq.work_manager)
WMultiWest (class in westpa.cli.tools.w_multi_west)
WNTopTool (class in westpa.cli.tools.w_ntop)
work_manager (westpa.cli.tools.ploterr.WESTSubcommand property)
(westpa.cli.tools.plothist.WESTSubcommand property)
(westpa.tools.core.WESTSubcommand property)
(westpa.tools.kinetics_tool.WESTSubcommand property)
(westpa.tools.WESTSubcommand property)
Worker (class in westpa.work_managers.mpi)
WorkManager (class in westpa.work_managers.core)
(class in westpa.work_managers.mpi)
(class in westpa.work_managers.processes)
(class in westpa.work_managers.serial)
(class in westpa.work_managers.threads)
(class in westpa.work_managers.zeromq.work_manager)
WPDist (class in westpa.cli.tools.w_pdist)
WRed (class in westpa.cli.tools.w_red)
WReweight (class in westpa.cli.tools.w_postanalysis_matrix)
(class in westpa.cli.tools.w_postanalysis_reweight)
(class in westpa.cli.tools.w_reweight)
writable() (westpa.core.propagators.executable.BytesIO method)
write() (westpa.core.h5io.HDF5TrajectoryFile method)
(westpa.core.propagators.executable.BytesIO method)
(westpa.core.textio.NumericTextOutputFormatter method)
write_bin_info() (in module westpa.cli.tools.w_bins)
(in module westpa.tools.binning)
write_bin_labels() (in module westpa.tools.binning)
(westpa.oldtools.aframe.binning.BinningMixin method)
(westpa.oldtools.aframe.BinningMixin method)
write_comment() (westpa.core.textio.NumericTextOutputFormatter method)
write_data() (westpa.core.h5io.WESTIterationFile method)
write_header() (westpa.core.textio.NumericTextOutputFormatter method)
write_host_info() (westpa.work_managers.zeromq.core.IsNode method)
(westpa.work_managers.zeromq.node.IsNode method)
(westpa.work_managers.zeromq.work_manager.IsNode method)
write_segment() (westpa.core.h5io.WESTIterationFile method)
writelines() (westpa.core.propagators.executable.BytesIO method)
(westpa.core.textio.NumericTextOutputFormatter method)
WSelectTool (class in westpa.cli.tools.w_select)
WStateProbs (class in westpa.cli.tools.w_stateprobs)
WSucc (class in westpa.cli.core.w_succ)
WTraceTool (class in westpa.cli.tools.w_trace)
X
xyz (westpa.core.h5io.Trajectory attribute)
(westpa.core.h5io.Trajectory property)
Y
YAMLConfig (class in westpa.core.yamlcfg)
YAMLSystem (class in westpa.core.yamlcfg)
YLoader (in module westpa.core.yamlcfg)
Z
zip_longest (class in westpa.core.kinetics.rate_averaging)
(class in westpa.core.sim_manager)
ZMQCore (class in westpa.work_managers.zeromq)
(class in westpa.work_managers.zeromq.core)
(class in westpa.work_managers.zeromq.node)
(class in westpa.work_managers.zeromq.work_manager)
(class in westpa.work_managers.zeromq.worker)
ZMQExecutor (class in westpa.work_managers.zeromq.worker)
ZMQNode (class in westpa.work_managers.zeromq)
(class in westpa.work_managers.zeromq.node)
(class in westpa.work_managers.zeromq.work_manager)
ZMQWMEnvironmentError
,
[1]
,
[2]
ZMQWMError
,
[1]
ZMQWMTimeout
,
[1]
,
[2]
ZMQWorker (class in westpa.work_managers.zeromq)
(class in westpa.work_managers.zeromq.work_manager)
(class in westpa.work_managers.zeromq.worker)
ZMQWorkerMissing
,
[1]
,
[2]
ZMQWorkManager (class in westpa.work_managers.zeromq)
(class in westpa.work_managers.zeromq.work_manager)
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