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

A

ANYTHING - Variable in class edu.duke.cs.banjo.utility.JZOOWildCardFilter
 
APPLICATIONSTATUS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATIONSTATUS_LOADINGDATA - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATIONSTATUS_LOADINGOBSERVATIONS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATIONSTATUS_LOADINGSTRUCTUREFILE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATIONSTATUS_SEARCHING - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATIONSTATUS_STARTUP - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATIONSTATUS_STARTUPCOMPLETED - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATION_NAME - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATION_NAME_LONG - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATION_VERSIONDATE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATION_VERSIONDESCRIPTION - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
APPLICATION_VERSIONNUMBER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
accept(File, String) - Method in class edu.duke.cs.banjo.utility.JZOOWildCardFilter
 
acceptedPerTemperature - Variable in class edu.duke.cs.banjo.learner.SearcherSimAnneal
 
acyclicChangeTypeTracker - Variable in class edu.duke.cs.banjo.learner.components.CycleChecker
 
addParent(int, int, int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
addParent(int, int, int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
addParent(int, int, int) - Method in interface edu.duke.cs.banjo.bayesnet.EdgesWithCachedStatisticsI
 
addToErrors(Set) - Method in class edu.duke.cs.banjo.data.settings.Settings
Adds a set of errors to the collectedErrors set.
addToErrors(BanjoError) - Method in class edu.duke.cs.banjo.data.settings.Settings
Add a single error to the collectedErrors set.
addToErrors(BanjoError, Exception) - Method in class edu.duke.cs.banjo.data.settings.Settings
Add a single error to the collectedErrors set.
addToGeneralProcessDataStorage(Object) - Method in class edu.duke.cs.banjo.data.settings.Settings
 
addToProcessedSettings(SettingItem) - Method in class edu.duke.cs.banjo.data.settings.Settings
 
addToWarnings(Set) - Method in class edu.duke.cs.banjo.data.settings.Settings
Adds a set of warnings to the collectedWarnings set.
addToWarnings(BanjoError) - Method in class edu.duke.cs.banjo.data.settings.Settings
Add a single warning to the collectedWarnings set.
addableParentMatrix - Variable in class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsArraySelector
 
addableParentMatrix - Variable in class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsMatrixSelector
 
addableParents - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
additionalInfo - Variable in class edu.duke.cs.banjo.utility.BanjoErrorHandler
 
adjustForLocalChange(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinder
 
adjustForLocalChange(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFS
 
adjustForLocalChange(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig
 
adjustForLocalChange(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli
 
adjustForLocalChange(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
adjustForLocalChange(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
adjustForLocalChange(int) - Method in interface edu.duke.cs.banjo.bayesnet.EdgesWithCachedStatisticsI
 
adjustNodeScoresForUndo(BayesNetChangeI) - Method in class edu.duke.cs.banjo.learner.components.Evaluator
 
adjustNodeScoresForUndo(BayesNetChangeI) - Method in class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
adjustNodeScoresForUndo(BayesNetChangeI) - Method in interface edu.duke.cs.banjo.learner.components.EvaluatorI
Adjusts the various internal score containers when a bayesNetChange is not permanently kept.
alpha - Variable in class edu.duke.cs.banjo.learner.components.EvaluatorBDe
 
alpha - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
alpha_ij - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
alpha_ijk - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
ancestorSet - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
ancestorSet - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
applyChange(BayesNetChangeI) - Method in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
applyChange(BayesNetChangeI) - Method in interface edu.duke.cs.banjo.bayesnet.BayesNetManagerI
 
arrFileList - Variable in class edu.duke.cs.banjo.utility.XMLProcessor
 
arrayAsString(int[]) - Static method in class edu.duke.cs.banjo.utility.StringUtil
Utility method (debug/test): Trivial helper function for quick trace output.
arrayOfParentCounts - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
arrayOfParentCountsToCompareTo - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
askToVerifySettings() - Method in class edu.duke.cs.banjo.learner.Searcher
(Optional) Lets user verify the selected search parameters before running a search.
assignBayesNetStructure(EdgesI, double, long) - Method in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
assignBayesNetStructure(EdgesWithCachedStatisticsI, double, long) - Method in class edu.duke.cs.banjo.bayesnet.BayesNetStructure
 
assignBayesNetStructure(EdgesI, double, long) - Method in interface edu.duke.cs.banjo.bayesnet.BayesNetStructureI
 
assignBayesNetStructure(EdgesWithCachedStatisticsI, double, long) - Method in interface edu.duke.cs.banjo.bayesnet.BayesNetStructureI
 
assignMatrix(int[]) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
assignMatrix(EdgesI) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
assignMatrix(EdgesAsArray) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArray
 
assignMatrix(EdgesWithCachedStatisticsI) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
assignMatrix(int[][][]) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrix
 
assignMatrix(EdgesI) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrix
 
assignMatrix(EdgesAsMatrix) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrix
 
assignMatrix(EdgesWithCachedStatisticsI) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
assignMatrix(EdgesI) - Method in interface edu.duke.cs.banjo.bayesnet.EdgesI
 
assignMatrix(EdgesWithCachedStatisticsI) - Method in interface edu.duke.cs.banjo.bayesnet.EdgesWithCachedStatisticsI
 
assignNodeScoreHashItem(int, int[][], double) - Method in class edu.duke.cs.banjo.bayesnet.NodeScoreCacheItem
Assigns a cached item using the underlying parameters that describe it.
assignNodeScoreHashItem(int, int[][], double) - Method in interface edu.duke.cs.banjo.bayesnet.NodeScoreCacheItemI
Assigns a cached item using the underlying parameters that describe it.
assignProperties(Properties) - Method in class edu.duke.cs.banjo.data.settings.Settings
Helper function to make a copy of a Properties object.
assignSet(Set) - Method in class edu.duke.cs.banjo.data.settings.Settings
Helper function to make a copy of a set of objects (of types SettingItem, String, or BanjoError)
associatedDirectory - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
associatedFileName - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 

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