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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
Overview
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