A B C D E F G H I J L M N O P R S T U V W X

E

ERRORDESCRIPTION_ALERT_CORRECTEDCHOICE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_DEFAULTAPPLIED - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_DEPRECATEDSETTING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_DEV - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_MISSINGDOTLOCATION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_MISSINGDOTLOCATION_INFO - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_OTHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_ALERT_UNKNOWNSETTING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_DOTEXECUTION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_DOTINTERRUPTION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_INVALIDCHOICE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_INVALIDPATH - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_INVALIDRANGE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_MISMATCHEDDATATYPE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_MISSINGMANDATORYVALUE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_MISSINGVALUE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_OTHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_POSTPROCESSING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_RULEVIOLATION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_WARNING_INVALIDCHOICE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORDESCRIPTION_WARNING_OTHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMESSAGEDISPLAYPREFIX - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_BANJO_OUTOFMEMORY_1 - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_BANJO_OUTOFMEMORY_2 - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_BANJO_OUTOFMEMORY_3 - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_BANJO_OUTOFMEMORY_3a - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_BANJO_OUTOFMEMORY_3b - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_COULDNOTFINDVALIDCHANGE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_INVALIDSEARCHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_MISSINGFILE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_MISSINGOBSERVATIONS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_MISSINGSTRUCTUREFILE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_MISSING_SETTINGSFILE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORMSG_NULL_SEARCHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_CORRECTEDCHOICE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_DEFAULTAPPLIED - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_DEPRECATEDSETTING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_DEV - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_MISSINGDOTLOCATION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_OTHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_ALERT_UNKNOWNSETTING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_DOTEXECUTION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_DOTINTERRUPTION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_INVALIDCHOICE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_INVALIDPATH - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_INVALIDRANGE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_MISMATCHEDDATATYPE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_MISSINGMANDATORYVALUE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_MISSINGVALUE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_OTHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_POSTPROCESSING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_RULEVIOLATION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_WARNING_INVALIDCHOICE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERRORTYPE_WARNING_OTHER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERROR_BANJO_DEV - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERROR_BANJO_OUTOFMEMORY - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERROR_BANJO_UNEXPECTED - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERROR_BANJO_USERINPUT - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERROR_BANJO_XML - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
ERROR_CHECKPOINTTRIGGER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
EXPECT - Variable in class edu.duke.cs.banjo.utility.JZOOWildCardFilter
 
EdgesAsArray - class edu.duke.cs.banjo.bayesnet.EdgesAsArray.
Contains the basic adjacency matrix implementation, using a 1-dimensional array.
EdgesAsArray(int, int, int) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
EdgesAsArrayWithCachedStatistics - class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.
Contains the data structures built around an adjacency matrix-approach for storing the network structure, using a 1-dimensional array.
EdgesAsArrayWithCachedStatistics(int, int, int, Settings) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
Basic constructor for creating the initial matrix and its supporting structures.
EdgesAsArrayWithCachedStatistics(int, int, int, String, String, Settings, String) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
EdgesAsArrayWithCachedStatistics(EdgesAsArray, Settings) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
EdgesAsArrayWithCachedStatistics(EdgesAsArrayWithCachedStatistics) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
EdgesAsArrayWithCachedStatistics(int, int, int, Settings, String) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
EdgesAsArrayWithCachedStatistics.CycleFinder - class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinder.
 
EdgesAsArrayWithCachedStatistics.CycleFinder() - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinder
 
EdgesAsArrayWithCachedStatistics.CycleFinderDFS - class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFS.
 
EdgesAsArrayWithCachedStatistics.CycleFinderDFS() - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFS
 
EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig - class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig.
 
EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig() - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig
 
EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli - class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli.
 
EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli() - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli
 
EdgesAsMatrix - class edu.duke.cs.banjo.bayesnet.EdgesAsMatrix.
Contains the basic adjacency matrix implementation.
EdgesAsMatrix(int, int, int) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsMatrix
 
EdgesAsMatrixWithCachedStatistics - class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics.
Contains the data structures built around an adjacency matrix-approach for storing the network structure.
EdgesAsMatrixWithCachedStatistics(int, int, int) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
Basic constructor for creating the initial matrix and its supporting structures.
EdgesAsMatrixWithCachedStatistics(int, int, int, String, String) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
Constructor used for loading a set of nodes (such as the must-be-absent-parents set) into the matrix structure, using a minimal amount of validation only.
EdgesAsMatrixWithCachedStatistics(int, int, int, String, String, Settings) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
Constructor used for loading a network structure (such as the must-be-present-parents or the initial structure), using an extensive amount of validation.
EdgesAsMatrixWithCachedStatistics(EdgesAsMatrix) - Constructor for class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
EdgesI - interface edu.duke.cs.banjo.bayesnet.EdgesI.
Documents the interface for creating an Edges implementation.
EdgesWithCachedStatisticsI - interface edu.duke.cs.banjo.bayesnet.EdgesWithCachedStatisticsI.
Documents the interface for creating an EdgesAsMatrixWithCachedStatistics implementation.
EquivalenceChecker - class edu.duke.cs.banjo.learner.components.EquivalenceChecker.
Combines common code shared by the different equivalence checker implementations.
EquivalenceChecker(Settings) - Constructor for class edu.duke.cs.banjo.learner.components.EquivalenceChecker
 
EquivalenceCheckerBasic - class edu.duke.cs.banjo.learner.components.EquivalenceCheckerBasic.
Provides basic equivalence checking between networks.
EquivalenceCheckerBasic(Settings) - Constructor for class edu.duke.cs.banjo.learner.components.EquivalenceCheckerBasic
 
EquivalenceCheckerI - interface edu.duke.cs.banjo.learner.components.EquivalenceCheckerI.
Documents the interface for creating an equivalence checker implementation.
EquivalenceCheckerSkip - class edu.duke.cs.banjo.learner.components.EquivalenceCheckerSkip.
Implements a "dummy" equivalence checker that lets us skip any equivalence comparisons during a search.
EquivalenceCheckerSkip(Settings) - Constructor for class edu.duke.cs.banjo.learner.components.EquivalenceCheckerSkip
 
Evaluator - class edu.duke.cs.banjo.learner.components.Evaluator.
Combines common code shared by the different evaluator implementations.
Evaluator(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.Evaluator
Constructor
Evaluator.ObservationsSelector - class edu.duke.cs.banjo.learner.components.Evaluator.ObservationsSelector.
 
Evaluator.ObservationsSelector() - Constructor for class edu.duke.cs.banjo.learner.components.Evaluator.ObservationsSelector
 
EvaluatorBDe - class edu.duke.cs.banjo.learner.components.EvaluatorBDe.
Computes the BDe score of a network.
EvaluatorBDe(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
EvaluatorBDe.CompactObservationsSelector - class edu.duke.cs.banjo.learner.components.EvaluatorBDe.CompactObservationsSelector.
 
EvaluatorBDe.CompactObservationsSelector(ObservationsI) - Constructor for class edu.duke.cs.banjo.learner.components.EvaluatorBDe.CompactObservationsSelector
 
EvaluatorBDe.LegacyObservationsSelector - class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LegacyObservationsSelector.
 
EvaluatorBDe.LegacyObservationsSelector(ObservationsI) - Constructor for class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LegacyObservationsSelector
 
EvaluatorBDe.LogGammaArray - class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaArray.
 
EvaluatorBDe.LogGammaArray() - Constructor for class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaArray
 
EvaluatorBDe.LogGammaComputer - class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaComputer.
 
EvaluatorBDe.LogGammaComputer() - Constructor for class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaComputer
 
EvaluatorBDe.LogGammaProvider - class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaProvider.
 
EvaluatorBDe.LogGammaProvider() - Constructor for class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaProvider
 
EvaluatorI - interface edu.duke.cs.banjo.learner.components.EvaluatorI.
Documents the interface for creating an evaluator implementation.
edgeSelector - Variable in class edu.duke.cs.banjo.learner.components.Proposer
 
edu.duke.cs.banjo.application - package edu.duke.cs.banjo.application
 
edu.duke.cs.banjo.bayesnet - package edu.duke.cs.banjo.bayesnet
 
edu.duke.cs.banjo.data.observations - package edu.duke.cs.banjo.data.observations
 
edu.duke.cs.banjo.data.settings - package edu.duke.cs.banjo.data.settings
 
edu.duke.cs.banjo.learner - package edu.duke.cs.banjo.learner
 
edu.duke.cs.banjo.utility - package edu.duke.cs.banjo.utility
 
elapsedTime - Variable in class edu.duke.cs.banjo.learner.Searcher
 
endDocument() - Method in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
endElement(String, String, String) - Method in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
endPrefixMapping(String) - Method in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
equals(Object) - Method in class edu.duke.cs.banjo.bayesnet.NodeScoreCacheItem
 
equals(Object) - Method in interface edu.duke.cs.banjo.bayesnet.NodeScoreCacheItemI
 
equals(Object) - Method in class edu.duke.cs.banjo.data.settings.SettingItem
 
equivalenceCheckCount - Variable in class edu.duke.cs.banjo.learner.components.EquivalenceChecker
 
equivalenceChecker - Variable in class edu.duke.cs.banjo.learner.Searcher
 
error(SAXParseException) - Method in class edu.duke.cs.banjo.utility.XMLProcessor.JTreeErrorHandler
This will report an error that has occurred; this indicates that a rule was broken, typically in validation, but that parsing can reasonably continue.
errorInfo - Variable in class edu.duke.cs.banjo.utility.BanjoError
 
errorMessageInvalidFilePath(String, String, String, String) - Method in class edu.duke.cs.banjo.data.settings.SettingItem
 
errorMessageMissingValue(String, String, String, String) - Method in class edu.duke.cs.banjo.data.settings.SettingItem
 
errorMessageText - Variable in class edu.duke.cs.banjo.utility.BanjoError
 
errorMessageWrongDataType(String, String, String, String) - Method in class edu.duke.cs.banjo.data.settings.SettingItem
 
errorMessageWrongTimeFormat(String, String, String, String) - Method in class edu.duke.cs.banjo.data.settings.SettingItem
 
errorType - Variable in class edu.duke.cs.banjo.utility.BanjoError
 
estimatedTime - Variable in class edu.duke.cs.banjo.learner.Searcher
 
evaluator - Variable in class edu.duke.cs.banjo.learner.Searcher
 
exceptionType - Variable in class edu.duke.cs.banjo.utility.BanjoException
 
execute(String[]) - Method in class edu.duke.cs.banjo.application.Banjo
 
execute() - Method in class edu.duke.cs.banjo.utility.PostProcessor
 
execute() - Method in class edu.duke.cs.banjo.utility.PreProcessor
 
executeExternalProgram(String) - Method in class edu.duke.cs.banjo.utility.PostProcessor
 
executeSearch() - Method in class edu.duke.cs.banjo.learner.Searcher.SearchExecuter
 
executeSearch() - Method in class edu.duke.cs.banjo.learner.Searcher
Executes the search based on the particular search algorithm.
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.GlobalSearchExecuter
 
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.LocalSearchExecuter
 
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy
Wrapper around the executeSearch method of the inner classes that govern the search behaviour.
executeSearch() - Method in interface edu.duke.cs.banjo.learner.SearcherI
Performes a search (this is the core method for any searcher implementation).
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.GlobalSearchExecuter
 
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.LocalSearchExecuter
 
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal
Wrapper around the executeSearch method of the inner classes that govern the search behaviour.
executeSearch() - Method in class edu.duke.cs.banjo.learner.SearcherSkip
 

A B C D E F G H I J L M N O P R S T U V W X