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

C

CHANGESTATUS_APPLIED - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGESTATUS_NONE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGESTATUS_READY - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGESTATUS_UNDONE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGETYPE_ADDITION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGETYPE_COUNT - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGETYPE_DELETION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGETYPE_NONE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CHANGETYPE_REVERSAL - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_CYCLECHECKER_ACTIONORDER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_CYCLECHECKER_METHOD - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_CYCLECHECKINGMETHOD_DESCR - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_CYCLECHECKINGMETHOD_DISP - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_DISCRETIZATIONSTARTINDEX - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_DISPLAYCOLLISIONS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_DISPLAYITERATIONRESTARTS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_DISPLAYPROGRESS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_DISPLAYSTATISTICS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_DISPLAYSTATISTICS_EQUIVCHECK - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_ECHOERROROUTPUTTOCMDLINE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_ECHOOUTPUTTOCMDLINE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_FINALTIMEDISPLAY - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_MAXVALUECOUNT - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_OBSERVATIONS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_OMITREVERSALS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_PARENTSETS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_TRACEFILE_1 - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_TRACEFILE_2 - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
CONFIG_TRACEFILE_3 - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
Counter - class edu.duke.cs.banjo.data.observations.Counter.
Implements a simple counter class, used in the discretization classes.
Counter() - Constructor for class edu.duke.cs.banjo.data.observations.Counter
 
Counter(int) - Constructor for class edu.duke.cs.banjo.data.observations.Counter
 
CycleChecker - class edu.duke.cs.banjo.learner.components.CycleChecker.
Combines common code shared by the different cycle checker implementations.
CycleChecker(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.CycleChecker
 
CycleCheckerApplyThenCheck - class edu.duke.cs.banjo.learner.components.CycleCheckerApplyThenCheck.
Checks for a cycle in the network by breadth first traversal.
CycleCheckerApplyThenCheck(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.CycleCheckerApplyThenCheck
 
CycleCheckerCheckThenApply - class edu.duke.cs.banjo.learner.components.CycleCheckerCheckThenApply.
Checks for a cycle in the network by depth first traversal.
CycleCheckerCheckThenApply(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.CycleCheckerCheckThenApply
 
CycleCheckerI - interface edu.duke.cs.banjo.learner.components.CycleCheckerI.
Documents the interface for creating a cycle checker implementation.
c_i - Variable in class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LogGammaArray
 
cachedCurrentNodePreviousScore - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
cachedNetworkPreviousScore - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
cachedNetworkScore - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
cachedNodeScores - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
cachedParentNodePreviousScore - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
cachedTimeStamp - Static variable in class edu.duke.cs.banjo.utility.StringUtil
 
changeList - Variable in class edu.duke.cs.banjo.learner.components.Proposer
 
changeStatus - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetChange
 
changeType - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetChange
 
changeTypeCount - Variable in class edu.duke.cs.banjo.learner.components.Proposer
 
characters(char[], int, int) - Method in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
checkBestNetworkScore - Variable in class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
checkBestNetworkScore - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
checkForDeprecatedSettings(String) - Method in class edu.duke.cs.banjo.data.settings.Settings
 
checkForReanneal() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal
Method used by terminator inner classes, for checking when to reanneal the (simulated annealing) search.
checkForRestart() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy
Method used by terminator inner classes, for checking when to restart the greedy search.
checkForUnregisteredSettings(String) - Method in class edu.duke.cs.banjo.data.settings.Settings
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.Searcher.SearchMultipleTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.Searcher.SearchTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.DoubleTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.IterationsTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.RestartsTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.SingleTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.TimeTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherGreedy.TripleTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.DoubleTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.IterationsTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.RestartsTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.SingleTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.TimeTerminator
 
checkTerminationCondition() - Method in class edu.duke.cs.banjo.learner.SearcherSimAnneal.TripleTerminator
 
checkThenApply - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
cleanupOnException() - Method in class edu.duke.cs.banjo.learner.components.Evaluator
 
cleanupOnException() - Method in class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
clone() - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
clone() - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrix
 
clone() - Method in interface edu.duke.cs.banjo.bayesnet.EdgesI
 
collectFeedback() - Method in class edu.duke.cs.banjo.learner.components.Recorder
 
collectedCharacters - Variable in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
collectedErrors - Variable in class edu.duke.cs.banjo.data.settings.SettingItem
 
collectedErrors - Variable in class edu.duke.cs.banjo.data.settings.Settings
 
collectedWarnings - Variable in class edu.duke.cs.banjo.data.settings.Settings
 
collisionsInCacheTracker - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
combineParameters() - Method in class edu.duke.cs.banjo.data.settings.Settings
 
combinePreprocessedObservations(PreprocessedObservations[]) - Method in class edu.duke.cs.banjo.data.observations.ObservationsAsArray
Combines the loaded observations into a single large array.
combinePreprocessedObservations(PreprocessedObservations[]) - Method in class edu.duke.cs.banjo.data.observations.ObservationsAsMatrix
Combines the loaded observations into a single large array.
combinedObservationDataPointsAsLoaded - Variable in class edu.duke.cs.banjo.data.observations.Observations
 
combinedParentCount - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
combinedParentCount - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
combinedParentCount - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
combinedParentCountToCompareTo - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
combinedPreprocessedObservationsAsLoaded - Variable in class edu.duke.cs.banjo.data.observations.Observations
 
commandLineParameters - Variable in class edu.duke.cs.banjo.data.settings.Settings
 
commitData(Collection, StringBuffer) - Method in class edu.duke.cs.banjo.learner.components.Recorder
 
compareTo(Object) - Method in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
compareTo(Object) - Method in interface edu.duke.cs.banjo.bayesnet.BayesNetStructureI
 
comparisonsSinceLastHighScore - Variable in class edu.duke.cs.banjo.learner.components.Decider
 
compileErrorMessages() - Method in class edu.duke.cs.banjo.data.settings.Settings
 
compileMemoryInfo(String) - Static method in class edu.duke.cs.banjo.utility.StringUtil
Composes a basic string that details the memory use of the application at the current moment.
compileRegisteredSettings() - Method in class edu.duke.cs.banjo.data.settings.Settings
Utility function that compiles a list of the settings that are known to be valid within the current version of Banjo (as provided by the BANJO class.
compileWarningMessages() - Method in class edu.duke.cs.banjo.data.settings.Settings
 
composeCompleteXMLElement(String, String, int) - Method in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
composeDotGraph(EdgesI, String, double) - Method in class edu.duke.cs.banjo.utility.PostProcessor
 
composeErrorClosing() - Method in class edu.duke.cs.banjo.utility.BanjoErrorHandler
 
composeErrorMessage(SettingItem, String) - Static method in class edu.duke.cs.banjo.utility.StringUtil
Composes an error message that resulted from a comparison between 2 setting items.
composeErrorMessage(SettingItem, SettingItem, String) - Static method in class edu.duke.cs.banjo.utility.StringUtil
Composes an error message that resulted from a comparison between 2 setting items.
composeErrorSignature() - Method in class edu.duke.cs.banjo.utility.BanjoErrorHandler
 
computeComplementaryMatrix(EdgesWithCachedStatisticsI, EdgesWithCachedStatisticsI) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
computeComplementaryMatrix(EdgesWithCachedStatisticsI, EdgesWithCachedStatisticsI) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
computeComplementaryMatrix(EdgesWithCachedStatisticsI, EdgesWithCachedStatisticsI) - Method in interface edu.duke.cs.banjo.bayesnet.EdgesWithCachedStatisticsI
 
computeConsensusGraph(TreeSet) - Method in class edu.duke.cs.banjo.utility.PostProcessor
 
computeInfluenceScoreForNode(EdgesI, int) - Method in class edu.duke.cs.banjo.utility.InfluenceScorer
 
computeInfluenceScores(BayesNetStructureI) - Method in class edu.duke.cs.banjo.utility.InfluenceScorer
 
computeInitialNetworkScore(BayesNetManagerI) - Method in class edu.duke.cs.banjo.learner.components.Evaluator
 
computeInitialNetworkScore(BayesNetManagerI) - Method in class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
computeInitialNetworkScore(BayesNetManagerI) - Method in interface edu.duke.cs.banjo.learner.components.EvaluatorI
 
computeMaxValueCounts() - Method in class edu.duke.cs.banjo.data.observations.ObservationsAsArray
Computes the maximum values for all the variables in the data set given by the current observations.
computeMaxValueCounts() - Method in class edu.duke.cs.banjo.data.observations.ObservationsAsMatrix
Computes the maximum values for all the variables in the data set given by the current observations.
computeNodeScore(int, int[][]) - Method in class edu.duke.cs.banjo.learner.components.Evaluator.ObservationsSelector
 
computeNodeScore(int, int[][]) - Method in class edu.duke.cs.banjo.learner.components.EvaluatorBDe.CompactObservationsSelector
 
computeNodeScore(int, int[][]) - Method in class edu.duke.cs.banjo.learner.components.EvaluatorBDe.LegacyObservationsSelector
 
computeNodeScore(int, int[][]) - Method in class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
computeValueMap() - Method in class edu.duke.cs.banjo.data.observations.Discretizer
 
computeValueMap() - Method in interface edu.duke.cs.banjo.data.observations.DiscretizerI
 
computeValueMap() - Method in class edu.duke.cs.banjo.data.observations.DiscretizerInterval
 
computeValueMap() - Method in class edu.duke.cs.banjo.data.observations.DiscretizerQuantile
 
computeValueMap() - Method in class edu.duke.cs.banjo.data.observations.DiscretizerTrivial
 
computedScoreTracker - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
configCycleCheckerMethod - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
consideredChangeTypeTracker - Variable in class edu.duke.cs.banjo.learner.components.CycleChecker
 
consideredChangeTypeTracker - Variable in class edu.duke.cs.banjo.learner.components.Decider
 
coolingFactor - Variable in class edu.duke.cs.banjo.learner.SearcherSimAnneal
 
createDotGraphic(String, String, String, String) - Method in class edu.duke.cs.banjo.utility.PostProcessor
 
createLabel(EdgesI, String, double) - Method in class edu.duke.cs.banjo.utility.PostProcessor
 
crossCheckCachedScoreTracker - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
cum_ij - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
cum_ijk - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
currentBestScoreSinceRestart - Variable in class edu.duke.cs.banjo.learner.Searcher
 
currentLagOffset - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
currentNodeID - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetChange
 
currentNodeScoreHashItem - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
currentParents - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
currentScore - Variable in class edu.duke.cs.banjo.learner.components.Decider
 
currentTemperature - Variable in class edu.duke.cs.banjo.learner.SearcherSimAnneal
 
currentTemperature - Variable in class edu.duke.cs.banjo.learner.components.DeciderMetropolis
 
currentVarOffset - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
cycleAtNode - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
cycleAtNode - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
cycleChecker - Variable in class edu.duke.cs.banjo.learner.Searcher
 
cycleCheckingNeedsAdjustment - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
cycleFinder - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
cycleFound - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinder
 

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